Correlation between copy number variation genes (focal events) and molecular subtypes
Uterine Corpus Endometrioid Carcinoma (Primary solid tumor)
28 January 2016  |  analyses__2016_01_28
Maintainer Information
Citation Information
doi:10.7908/C1W66K83
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2016): Correlation between copy number variation genes (focal events) and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1W66K83
Overview
Introduction

This pipeline computes the correlation between significant copy number variation (cnv focal) genes and molecular subtypes.

Summary

Testing the association between copy number variation 101 focal events and 12 molecular subtypes across 539 patients, 1081 significant findings detected with P value < 0.05 and Q value < 0.25.

  • amp_1p35.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1p34.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q21.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q22 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q42.3 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_2p24.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_2q13 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_3p25.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_3p14.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • amp_3q26.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_3q26.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_4p16.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_5p15.33 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_5q35.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_6p24.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_6q25.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_7q31.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • amp_8p11.22 cnv correlated to 'CN_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • amp_8p11.21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_8q24.21 cnv correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_8q24.21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_9p24.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_9q34.3 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_10q22.2 cnv correlated to 'MRNA_CNMF',  'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CNMF'.

  • amp_11p11.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_11q13.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_11q14.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_12p12.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_12q13.11 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_12q13.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_13q34 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_14q24.3 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_14q32.33 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_15q26.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • amp_16p11.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_17q11.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_17q12 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_17q25.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_18p11.31 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_18q11.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_19p13.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_19p13.12 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_19q12 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_20p13 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_20q11.21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_20q13.12 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_20q13.33 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_22q12.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_xp11.23 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_xq28 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • del_1p36.21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_1p36.11 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_2p25.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • del_2q22.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_2q37.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • del_3p14.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_3q13.31 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • del_4p16.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_4p15.31 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_4q22.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_4q34.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_5q12.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_6q26 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_7p22.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_7q11.22 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_7q31.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_7q36.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_8p23.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_8p21.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_9p23 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_9q21.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_9q34.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_10q21.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_10q23.31 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_11p15.5 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_11q14.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_11q25 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_12q23.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_12q24.33 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_13q11 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_13q14.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_14q13.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_15q15.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_15q23 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_16p13.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_16q21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_16q22.3 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_16q23.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_17p13.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_17p11.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_17q11.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_17q21.31 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_18q21.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_18q23 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_19p13.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_19p12 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_19q13.43 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_20p12.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • del_22q12.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • del_22q13.32 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_xp21.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 101 focal events and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 1081 significant findings detected.

Clinical
Features 		MRNA
CNMF 		MRNA
CHIERARCHICAL 		CN
CNMF 		METHLYATION
CNMF 		RPPA
CNMF 		RPPA
CHIERARCHICAL 		MRNASEQ
CNMF 		MRNASEQ
CHIERARCHICAL 		MIRSEQ
CNMF 		MIRSEQ
CHIERARCHICAL 		MIRSEQ
MATURE
CNMF 		MIRSEQ
MATURE
CHIERARCHICAL
nCNV (%) nWild-Type Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test
amp 1p35 2 56 (10%) 483 0.0426
(0.0481) 		0.00054
(0.000742) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00015
(0.000219) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00807
(0.00978) 		0.00029
(0.000409)
amp 1p34 2 73 (14%) 466 0.0108
(0.0129) 		0.00124
(0.00164) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0031
(0.00395) 		2e-05
(3.22e-05)
amp 1q21 3 243 (45%) 296 0.0258
(0.0297) 		0.00538
(0.00665) 		1e-05
(1.71e-05) 		0.00683
(0.00837) 		0.0137
(0.0161) 		0.0205
(0.0238) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		4e-05
(6.19e-05) 		0.00013
(0.00019) 		9e-05
(0.000134)
amp 1q22 256 (47%) 283 0.0472
(0.0531) 		0.0108
(0.0129) 		1e-05
(1.71e-05) 		0.00197
(0.00257) 		0.0276
(0.0317) 		0.0189
(0.022) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00202
(0.00263) 		0.00052
(0.000717)
amp 3q26 2 175 (32%) 364 6e-05
(9.1e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 3q26 2 164 (30%) 375 0.00045
(0.000626) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 4p16 3 52 (10%) 487 0.0426
(0.0481) 		0.00751
(0.00918) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00016
(0.000233) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00616
(0.00758) 		0.00109
(0.00145)
amp 6p24 2 117 (22%) 422 0.00471
(0.00589) 		0.00058
(0.000792) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05)
amp 8p11 21 162 (30%) 377 0.0169
(0.0197) 		0.0296
(0.0338) 		1e-05
(1.71e-05) 		0.0118
(0.0139) 		0.00155
(0.00203) 		6e-05
(9.1e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		0.00111
(0.00147) 		0.00385
(0.00486)
amp 8q24 21 215 (40%) 324 0.00426
(0.00535) 		0.00611
(0.00753) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05)
amp 11p11 2 52 (10%) 487 0.00266
(0.0034) 		0.00796
(0.00969) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00153
(0.00201) 		0.00906
(0.0109) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0273
(0.0313) 		0.0196
(0.0228)
amp 16p11 2 66 (12%) 473 0.0084
(0.0102) 		0.00513
(0.00638) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00238
(0.00307) 		0.00027
(0.000381) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00081
(0.00109) 		0.00303
(0.00387)
amp 17q25 1 105 (19%) 434 5e-05
(7.66e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 19p13 2 92 (17%) 447 4e-05
(6.19e-05) 		4e-05
(6.19e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		0.00664
(0.00815)
amp 19p13 12 99 (18%) 440 0.00358
(0.00454) 		0.00017
(0.000246) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		7e-05
(0.000106)
amp 19q12 121 (22%) 418 0.00666
(0.00817) 		7e-05
(0.000106) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05)
amp 20q11 21 152 (28%) 387 0.00094
(0.00126) 		4e-05
(6.19e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		0.00013
(0.00019)
amp 20q13 12 152 (28%) 387 0.0112
(0.0133) 		0.00939
(0.0113) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		8e-05
(0.00012) 		1e-05
(1.71e-05)
amp 20q13 33 153 (28%) 386 0.0111
(0.0132) 		0.0014
(0.00184) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00023
(0.000326) 		1e-05
(1.71e-05)
del 1p36 21 71 (13%) 468 0.0328
(0.0374) 		0.0017
(0.00223) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00351
(0.00446) 		0.00062
(0.000842)
del 1p36 11 83 (15%) 456 0.0422
(0.0478) 		0.00775
(0.00947) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00052
(0.000717) 		2e-05
(3.22e-05)
del 2q22 1 49 (9%) 490 0.00799
(0.0097) 		0.00518
(0.00643) 		1e-05
(1.71e-05) 		5e-05
(7.66e-05) 		2e-05
(3.22e-05) 		0.00065
(0.00088) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00026
(0.000368) 		0.00502
(0.00625)
del 3p14 2 79 (15%) 460 0.0426
(0.0481) 		0.00798
(0.0097) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00532
(0.00659) 		1e-05
(1.71e-05)
del 4p16 3 94 (17%) 445 0.0113
(0.0133) 		0.00108
(0.00144) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		6e-05
(9.1e-05) 		7e-05
(0.000106)
del 4p15 31 99 (18%) 440 0.0113
(0.0133) 		0.0096
(0.0115) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 4q22 1 106 (20%) 433 0.00369
(0.00467) 		0.00011
(0.000163) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05)
del 4q34 3 130 (24%) 409 0.00402
(0.00506) 		0.00018
(0.00026) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 5q12 1 111 (21%) 428 0.0116
(0.0137) 		0.00984
(0.0118) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 7p22 3 72 (13%) 467 0.00051
(0.000706) 		0.01
(0.012) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00094
(0.00126) 		2e-05
(3.22e-05)
del 8p23 2 119 (22%) 420 0.00218
(0.00283) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 8p21 2 117 (22%) 422 0.00258
(0.0033) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 9q21 2 129 (24%) 410 3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		9e-05
(0.000134)
del 9q34 2 132 (24%) 407 4e-05
(6.19e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00017
(0.000246) 		4e-05
(6.19e-05)
del 14q13 1 73 (14%) 466 0.00858
(0.0104) 		0.0052
(0.00645) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00067
(0.000906) 		0.0002
(0.000287)
del 15q15 1 140 (26%) 399 0.0432
(0.0488) 		0.0108
(0.0129) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 15q23 115 (21%) 424 0.00255
(0.00327) 		0.00052
(0.000717) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 16p13 3 92 (17%) 447 0.011
(0.0131) 		0.00968
(0.0116) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05)
del 16q21 154 (29%) 385 0.00104
(0.00139) 		8e-05
(0.00012) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05)
del 16q23 1 166 (31%) 373 0.00484
(0.00604) 		0.00019
(0.000274) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05)
del 17p13 3 122 (23%) 417 0.00072
(0.00097) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00121
(0.0016)
del 17p11 2 128 (24%) 411 0.00087
(0.00117) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		0.00012
(0.000177)
del 17q11 2 105 (19%) 434 0.00053
(0.000729) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00231
(0.00299) 		0.0274
(0.0314)
del 17q21 31 114 (21%) 425 6e-05
(9.1e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00021
(3e-04) 		0.0154
(0.018)
del 19p13 3 157 (29%) 382 2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 19q13 43 67 (12%) 472 0.00089
(0.00119) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00358
(0.00454) 		2e-05
(3.22e-05)
del 22q13 32 140 (26%) 399 6e-05
(9.1e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		8e-05
(0.00012) 		1e-05
(1.71e-05)
del xp21 1 88 (16%) 451 0.00053
(0.000729) 		0.00106
(0.00141) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		4e-05
(6.19e-05) 		2e-05
(3.22e-05)
amp 2q13 119 (22%) 420 0.211
(0.223) 		0.0292
(0.0334) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 5p15 33 89 (17%) 450 0.292
(0.306) 		0.044
(0.0497) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 8q24 21 209 (39%) 330 0.0237
(0.0274) 		0.0723
(0.0799) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 11q13 2 74 (14%) 465 0.00058
(0.000792) 		0.00943
(0.0113) 		1e-05
(1.71e-05) 		0.00016
(0.000233) 		0.00198
(0.00258) 		0.0007
(0.000944) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		0.071
(0.0787) 		0.00437
(0.00548)
amp 14q24 3 64 (12%) 475 0.0717
(0.0794) 		0.01
(0.012) 		1e-05
(1.71e-05) 		5e-05
(7.66e-05) 		0.00173
(0.00226) 		0.0116
(0.0137) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0466
(0.0524) 		0.0154
(0.0181)
amp 17q12 75 (14%) 464 0.11
(0.12) 		0.00225
(0.00292) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00024
(0.00034) 		1e-05
(1.71e-05)
amp 20p13 117 (22%) 422 0.122
(0.132) 		0.05
(0.0561) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		9e-05
(0.000134) 		5e-05
(7.66e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.003
(0.00383) 		5e-05
(7.66e-05)
del 6q26 46 (9%) 493 0.35
(0.366) 		0.0302
(0.0345) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00037
(0.000519) 		0.00149
(0.00196) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0002
(0.000287) 		0.00021
(3e-04)
del 9p23 80 (15%) 459 0.122
(0.132) 		0.0498
(0.0559) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00033
(0.000464) 		0.00056
(0.000768) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00403
(0.00507) 		0.0112
(0.0133)
del 13q11 98 (18%) 441 0.41
(0.426) 		0.0395
(0.0448) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00452
(0.00567) 		0.00661
(0.00812)
del 16q22 3 158 (29%) 381 0.0516
(0.0578) 		0.0102
(0.0122) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		8e-05
(0.00012) 		1e-05
(1.71e-05)
del 22q12 1 95 (18%) 444 0.00252
(0.00324) 		0.00738
(0.00903) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00058
(0.000792) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		0.00794
(0.00967) 		0.0998
(0.109)
amp 2p24 3 122 (23%) 417 0.359
(0.374) 		0.133
(0.143) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		4e-05
(6.19e-05) 		0.0001
(0.000149) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		5e-05
(7.66e-05) 		0.00041
(0.000573)
amp 3p25 1 82 (15%) 457 0.272
(0.285) 		0.0532
(0.0594) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00065
(0.00088) 		4e-05
(6.19e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00329
(0.00419) 		0.00454
(0.00568)
amp 6q25 1 88 (16%) 451 0.464
(0.48) 		1
(1.00) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00375
(0.00474) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		0.011
(0.0131) 		0.0176
(0.0205)
amp 9p24 2 65 (12%) 474 0.168
(0.179) 		0.0875
(0.0961) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0004
(0.00056) 		0.00023
(0.000326)
amp 9q34 3 39 (7%) 500 0.159
(0.17) 		0.0135
(0.0159) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0105
(0.0125) 		0.00205
(0.00267) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		8e-05
(0.00012) 		1e-05
(1.71e-05) 		0.0732
(0.0808) 		0.00785
(0.00958)
amp 11q14 1 60 (11%) 479 0.124
(0.134) 		0.112
(0.122) 		1e-05
(1.71e-05) 		6e-05
(9.1e-05) 		0.0253
(0.0292) 		0.00224
(0.00291) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		0.0289
(0.0331) 		0.0263
(0.0303)
amp 12q13 11 87 (16%) 452 0.639
(0.655) 		0.203
(0.215) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		5e-05
(7.66e-05) 		0.00062
(0.000842) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00249
(0.0032) 		7e-05
(0.000106)
amp 12q13 2 100 (19%) 439 0.356
(0.371) 		0.0875
(0.0961) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00011
(0.000163) 		0.00055
(0.000755) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0002
(0.000287) 		0.00021
(3e-04)
amp 13q34 58 (11%) 481 0.846
(0.863) 		0.165
(0.177) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00062
(0.000842) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00019
(0.000274) 		4e-05
(6.19e-05)
amp 14q32 33 79 (15%) 460 0.503
(0.519) 		0.314
(0.328) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00022
(0.000313) 		0.00047
(0.000653) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00499
(0.00622) 		0.0318
(0.0363)
amp 17q11 2 71 (13%) 468 0.121
(0.131) 		0.0511
(0.0572) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		6e-05
(9.1e-05) 		1e-05
(1.71e-05)
amp 18p11 31 96 (18%) 443 0.212
(0.223) 		0.0556
(0.0621) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05)
amp 18q11 2 69 (13%) 470 0.109
(0.119) 		0.184
(0.196) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
amp 22q12 2 62 (12%) 477 0.353
(0.368) 		0.194
(0.206) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 7q11 22 41 (8%) 498 1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		0.00064
(0.000869) 		0.00248
(0.00319) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0111
(0.0131) 		0.0046
(0.00575)
del 7q31 1 55 (10%) 484 0.135
(0.145) 		0.166
(0.177) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		4e-05
(6.19e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00015
(0.000219) 		0.00015
(0.000219)
del 7q36 1 63 (12%) 476 0.411
(0.426) 		0.0793
(0.0874) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00013
(0.00019) 		3e-05
(4.73e-05)
del 10q21 1 50 (9%) 489 1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		7e-05
(0.000106) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05)
del 10q23 31 78 (14%) 461 0.133
(0.143) 		0.166
(0.177) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00013
(0.00019) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		8e-05
(0.00012) 		4e-05
(6.19e-05)
del 11p15 5 104 (19%) 435 0.352
(0.367) 		0.195
(0.206) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 11q14 1 69 (13%) 470 1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		5e-05
(7.66e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00011
(0.000163) 		1e-05
(1.71e-05)
del 11q25 94 (17%) 445 0.135
(0.145) 		0.168
(0.179) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00028
(0.000395) 		1e-05
(1.71e-05)
del 12q23 1 56 (10%) 483 1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05)
del 12q24 33 66 (12%) 473 1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		9e-05
(0.000134) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05)
del 13q14 2 106 (20%) 433 1
(1.00) 		0.193
(0.205) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		4e-05
(6.19e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0224
(0.0258) 		0.0166
(0.0194)
del 18q21 2 90 (17%) 449 0.624
(0.641) 		0.251
(0.264) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00043
(6e-04) 		0.00142
(0.00187)
del 18q23 98 (18%) 441 0.621
(0.638) 		0.254
(0.267) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00013
(0.00019) 		0.00173
(0.00226)
del 19p12 58 (11%) 481 1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0012
(0.00159) 		3e-05
(4.73e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00586
(0.00723) 		0.0002
(0.000287)
amp 5q35 3 57 (11%) 482 0.135
(0.145) 		0.169
(0.179) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		0.00035
(0.000492) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0699
(0.0775) 		0.0007
(0.000944)
amp 12p12 1 92 (17%) 447 0.526
(0.542) 		0.538
(0.554) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0882
(0.0967) 		0.00097
(0.00129) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.0007
(0.000944) 		6e-05
(9.1e-05)
amp 1q42 3 227 (42%) 312 0.0799
(0.088) 		0.0385
(0.0438) 		1e-05
(1.71e-05) 		0.0724
(0.0799) 		0.0625
(0.0695) 		0.0313
(0.0357) 		0.0196
(0.0228) 		0.00059
(0.000804) 		0.00031
(0.000436) 		0.0334
(0.038) 		0.391
(0.406) 		0.0131
(0.0154)
amp 3p14 1 65 (12%) 474 0.76
(0.777) 		0.513
(0.529) 		1e-05
(1.71e-05) 		0.00024
(0.00034) 		0.113
(0.123) 		0.0192
(0.0224) 		1e-05
(1.71e-05) 		2e-05
(3.22e-05) 		0.00013
(0.00019) 		0.00044
(0.000614) 		0.0138
(0.0161) 		0.0616
(0.0685)
amp 7q31 2 93 (17%) 446 0.638
(0.654) 		0.434
(0.45) 		1e-05
(1.71e-05) 		0.0004
(0.00056) 		0.133
(0.143) 		0.00127
(0.00168) 		0.00096
(0.00128) 		0.00012
(0.000177) 		0.00052
(0.000717) 		0.0048
(0.00599) 		0.00229
(0.00297) 		0.0897
(0.0983)
amp xp11 23 90 (17%) 449 0.433
(0.449) 		0.814
(0.832) 		1e-05
(1.71e-05) 		0.0013
(0.00171) 		0.526
(0.542) 		0.0922
(0.101) 		3e-05
(4.73e-05) 		0.00045
(0.000626) 		0.00609
(0.00751) 		0.0005
(0.000693) 		0.00236
(0.00305) 		0.00787
(0.0096)
amp xq28 93 (17%) 446 0.118
(0.128) 		0.0266
(0.0306) 		1e-05
(1.71e-05) 		0.162
(0.173) 		0.0599
(0.0667) 		0.0388
(0.044) 		0.00866
(0.0105) 		0.00246
(0.00317) 		0.0114
(0.0135) 		0.0102
(0.0122) 		0.00047
(0.000653) 		0.192
(0.204)
del 2q37 3 52 (10%) 487 1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		0.00378
(0.00478) 		0.0053
(0.00657) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		0.00022
(0.000313) 		0.00089
(0.00119) 		0.265
(0.278) 		0.198
(0.21)
del 20p12 1 35 (6%) 504 1e-05
(1.71e-05) 		0.0197
(0.0229) 		0.496
(0.512) 		0.0041
(0.00515) 		0.00822
(0.00995) 		0.00258
(0.0033) 		0.00018
(0.00026) 		0.00536
(0.00663) 		0.0447
(0.0503) 		0.345
(0.361)
amp 15q26 3 38 (7%) 501 1e-05
(1.71e-05) 		0.00394
(0.00497) 		0.0472
(0.0531) 		0.083
(0.0913) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		9e-05
(0.000134) 		1e-05
(1.71e-05) 		0.0574
(0.064) 		0.0558
(0.0623)
del 2p25 3 26 (5%) 513 1e-05
(1.71e-05) 		0.00058
(0.000792) 		0.0219
(0.0253) 		0.11
(0.12) 		2e-05
(3.22e-05) 		0.00011
(0.000163) 		0.00021
(3e-04) 		0.00217
(0.00282) 		0.237
(0.249) 		0.228
(0.24)
del 3q13 31 43 (8%) 496 0.621
(0.638) 		0.184
(0.196) 		1e-05
(1.71e-05) 		0.0105
(0.0125) 		0.0836
(0.0919) 		0.00367
(0.00465) 		1e-05
(1.71e-05) 		1e-05
(1.71e-05) 		3e-05
(4.73e-05) 		4e-05
(6.19e-05) 		0.0523
(0.0585) 		0.0664
(0.0737)
amp 10q22 2 143 (27%) 396 0.0209
(0.0242) 		0.114
(0.124) 		1e-05
(1.71e-05) 		0.838
(0.855) 		0.125
(0.135) 		0.286
(0.299) 		0.00012
(0.000177) 		0.00236
(0.00305) 		0.00089
(0.00119) 		0.163
(0.174) 		0.00019
(0.000274) 		0.213
(0.224)
amp 8p11 22 126 (23%) 413 0.117
(0.127) 		0.224
(0.236) 		1e-05
(1.71e-05) 		0.923
(0.94) 		0.445
(0.461) 		0.00023
(0.000326) 		0.108
(0.118) 		0.008
(0.00971) 		0.0367
(0.0417) 		0.823
(0.84) 		0.735
(0.752) 		0.115
(0.125)
'amp_1p35.2' versus 'MRNA_CNMF'

P value = 0.0426 (Fisher's exact test), Q value = 0.048

Table S1.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 1(1P35.2) MUTATED 1 5 0 0
AMP PEAK 1(1P35.2) WILD-TYPE 14 12 14 7

Figure S1.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1p35.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00054 (Fisher's exact test), Q value = 0.00074

Table S2.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 1(1P35.2) MUTATED 1 5 0 0 0
AMP PEAK 1(1P35.2) WILD-TYPE 13 4 7 7 16

Figure S2.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1p35.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S3.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 1(1P35.2) MUTATED 54 0 0 2
AMP PEAK 1(1P35.2) WILD-TYPE 154 178 99 52

Figure S3.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1p35.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S4.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 1(1P35.2) MUTATED 30 9 6
AMP PEAK 1(1P35.2) WILD-TYPE 124 69 187

Figure S4.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1p35.2' versus 'RPPA_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.00022

Table S5.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 1(1P35.2) MUTATED 1 1 6 8 18 4 7
AMP PEAK 1(1P35.2) WILD-TYPE 38 80 46 48 66 64 46

Figure S5.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_1p35.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S6.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 1(1P35.2) MUTATED 1 34 6 4
AMP PEAK 1(1P35.2) WILD-TYPE 107 148 87 46

Figure S6.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1p35.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S7.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 1(1P35.2) MUTATED 46 3 2 4
AMP PEAK 1(1P35.2) WILD-TYPE 142 120 91 129

Figure S7.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1p35.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S8.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 1(1P35.2) MUTATED 37 0 7 0 7 4 0
AMP PEAK 1(1P35.2) WILD-TYPE 86 53 40 65 101 62 75

Figure S8.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1p35.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S9.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 1(1P35.2) MUTATED 38 2 7 4 2
AMP PEAK 1(1P35.2) WILD-TYPE 126 78 99 129 45

Figure S9.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1p35.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S10.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 1(1P35.2) MUTATED 11 38 4
AMP PEAK 1(1P35.2) WILD-TYPE 207 134 136

Figure S10.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p35.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00807 (Fisher's exact test), Q value = 0.0098

Table S11.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 1(1P35.2) MUTATED 20 5 5 12
AMP PEAK 1(1P35.2) WILD-TYPE 96 93 87 80

Figure S11.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_1p35.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00029 (Fisher's exact test), Q value = 0.00041

Table S12.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 1(1P35.2) MUTATED 29 5 8
AMP PEAK 1(1P35.2) WILD-TYPE 134 127 95

Figure S12.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1p34.2' versus 'MRNA_CNMF'

P value = 0.0108 (Fisher's exact test), Q value = 0.013

Table S13.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 2(1P34.2) MUTATED 1 6 0 0
AMP PEAK 2(1P34.2) WILD-TYPE 14 11 14 7

Figure S13.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1p34.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00124 (Fisher's exact test), Q value = 0.0016

Table S14.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 2(1P34.2) MUTATED 2 5 0 0 0
AMP PEAK 2(1P34.2) WILD-TYPE 12 4 7 7 16

Figure S14.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1p34.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S15.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 2(1P34.2) MUTATED 70 0 0 3
AMP PEAK 2(1P34.2) WILD-TYPE 138 178 99 51

Figure S15.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1p34.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S16.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 2(1P34.2) MUTATED 39 18 6
AMP PEAK 2(1P34.2) WILD-TYPE 115 60 187

Figure S16.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1p34.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S17.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 2(1P34.2) MUTATED 1 1 4 14 18 10 8
AMP PEAK 2(1P34.2) WILD-TYPE 38 80 48 42 66 58 45

Figure S17.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_1p34.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S18.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 2(1P34.2) MUTATED 0 36 16 4
AMP PEAK 2(1P34.2) WILD-TYPE 108 146 77 46

Figure S18.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1p34.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S19.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 2(1P34.2) MUTATED 61 3 3 5
AMP PEAK 2(1P34.2) WILD-TYPE 127 120 90 128

Figure S19.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1p34.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S20.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 2(1P34.2) MUTATED 49 0 10 0 8 5 0
AMP PEAK 2(1P34.2) WILD-TYPE 74 53 37 65 100 61 75

Figure S20.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1p34.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S21.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 2(1P34.2) MUTATED 59 2 5 4 1
AMP PEAK 2(1P34.2) WILD-TYPE 105 78 101 129 46

Figure S21.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1p34.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S22.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 2(1P34.2) MUTATED 12 55 4
AMP PEAK 2(1P34.2) WILD-TYPE 206 117 136

Figure S22.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p34.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0031 (Fisher's exact test), Q value = 0.004

Table S23.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 2(1P34.2) MUTATED 26 6 10 17
AMP PEAK 2(1P34.2) WILD-TYPE 90 92 82 75

Figure S23.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_1p34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S24.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 2(1P34.2) MUTATED 40 6 13
AMP PEAK 2(1P34.2) WILD-TYPE 123 126 90

Figure S24.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q21.3' versus 'MRNA_CNMF'

P value = 0.0258 (Fisher's exact test), Q value = 0.03

Table S25.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 3(1Q21.3) MUTATED 11 12 6 1
AMP PEAK 3(1Q21.3) WILD-TYPE 4 5 8 6

Figure S25.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1q21.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00538 (Fisher's exact test), Q value = 0.0066

Table S26.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 3(1Q21.3) MUTATED 9 7 6 5 3
AMP PEAK 3(1Q21.3) WILD-TYPE 5 2 1 2 13

Figure S26.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1q21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S27.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 3(1Q21.3) MUTATED 128 25 37 53
AMP PEAK 3(1Q21.3) WILD-TYPE 80 153 62 1

Figure S27.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q21.3' versus 'METHLYATION_CNMF'

P value = 0.00683 (Fisher's exact test), Q value = 0.0084

Table S28.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 3(1Q21.3) MUTATED 82 34 70
AMP PEAK 3(1Q21.3) WILD-TYPE 72 44 123

Figure S28.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1q21.3' versus 'RPPA_CNMF'

P value = 0.0137 (Fisher's exact test), Q value = 0.016

Table S29.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 3(1Q21.3) MUTATED 19 42 15 36 38 30 21
AMP PEAK 3(1Q21.3) WILD-TYPE 20 39 37 20 46 38 32

Figure S29.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_1q21.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0205 (Fisher's exact test), Q value = 0.024

Table S30.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 3(1Q21.3) MUTATED 58 91 36 16
AMP PEAK 3(1Q21.3) WILD-TYPE 50 91 57 34

Figure S30.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1q21.3' versus 'MRNASEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S31.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 3(1Q21.3) MUTATED 111 53 41 38
AMP PEAK 3(1Q21.3) WILD-TYPE 77 70 52 95

Figure S31.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1q21.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S32.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 3(1Q21.3) MUTATED 82 28 22 32 40 18 21
AMP PEAK 3(1Q21.3) WILD-TYPE 41 25 25 33 68 48 54

Figure S32.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S33.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 3(1Q21.3) MUTATED 104 45 38 40 13
AMP PEAK 3(1Q21.3) WILD-TYPE 60 35 68 93 34

Figure S33.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1q21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S34.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 3(1Q21.3) MUTATED 92 102 46
AMP PEAK 3(1Q21.3) WILD-TYPE 126 70 94

Figure S34.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S35.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 3(1Q21.3) MUTATED 73 33 40 36
AMP PEAK 3(1Q21.3) WILD-TYPE 43 65 52 56

Figure S35.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_1q21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.00013

Table S36.  Gene #3: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 3(1Q21.3) MUTATED 90 41 51
AMP PEAK 3(1Q21.3) WILD-TYPE 73 91 52

Figure S36.  Get High-res Image Gene #3: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q22' versus 'MRNA_CNMF'

P value = 0.0472 (Fisher's exact test), Q value = 0.053

Table S37.  Gene #4: 'amp_1q22' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 4(1Q22) MUTATED 11 11 6 1
AMP PEAK 4(1Q22) WILD-TYPE 4 6 8 6

Figure S37.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1q22' versus 'MRNA_CHIERARCHICAL'

P value = 0.0108 (Fisher's exact test), Q value = 0.013

Table S38.  Gene #4: 'amp_1q22' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 4(1Q22) MUTATED 9 6 6 5 3
AMP PEAK 4(1Q22) WILD-TYPE 5 3 1 2 13

Figure S38.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1q22' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S39.  Gene #4: 'amp_1q22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 4(1Q22) MUTATED 138 26 38 54
AMP PEAK 4(1Q22) WILD-TYPE 70 152 61 0

Figure S39.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q22' versus 'METHLYATION_CNMF'

P value = 0.00197 (Fisher's exact test), Q value = 0.0026

Table S40.  Gene #4: 'amp_1q22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 4(1Q22) MUTATED 86 39 72
AMP PEAK 4(1Q22) WILD-TYPE 68 39 121

Figure S40.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1q22' versus 'RPPA_CNMF'

P value = 0.0276 (Fisher's exact test), Q value = 0.032

Table S41.  Gene #4: 'amp_1q22' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 4(1Q22) MUTATED 20 43 16 36 40 29 24
AMP PEAK 4(1Q22) WILD-TYPE 19 38 36 20 44 39 29

Figure S41.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_1q22' versus 'RPPA_CHIERARCHICAL'

P value = 0.0189 (Fisher's exact test), Q value = 0.022

Table S42.  Gene #4: 'amp_1q22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 4(1Q22) MUTATED 60 94 37 17
AMP PEAK 4(1Q22) WILD-TYPE 48 88 56 33

Figure S42.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1q22' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S43.  Gene #4: 'amp_1q22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 4(1Q22) MUTATED 119 54 41 42
AMP PEAK 4(1Q22) WILD-TYPE 69 69 52 91

Figure S43.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1q22' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S44.  Gene #4: 'amp_1q22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 4(1Q22) MUTATED 88 28 23 33 41 20 23
AMP PEAK 4(1Q22) WILD-TYPE 35 25 24 32 67 46 52

Figure S44.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q22' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S45.  Gene #4: 'amp_1q22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 4(1Q22) MUTATED 108 45 41 45 14
AMP PEAK 4(1Q22) WILD-TYPE 56 35 65 88 33

Figure S45.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1q22' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S46.  Gene #4: 'amp_1q22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 4(1Q22) MUTATED 92 110 51
AMP PEAK 4(1Q22) WILD-TYPE 126 62 89

Figure S46.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q22' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00202 (Fisher's exact test), Q value = 0.0026

Table S47.  Gene #4: 'amp_1q22' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 4(1Q22) MUTATED 73 38 42 40
AMP PEAK 4(1Q22) WILD-TYPE 43 60 50 52

Figure S47.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_1q22' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00052 (Fisher's exact test), Q value = 0.00072

Table S48.  Gene #4: 'amp_1q22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 4(1Q22) MUTATED 92 46 55
AMP PEAK 4(1Q22) WILD-TYPE 71 86 48

Figure S48.  Get High-res Image Gene #4: 'amp_1q22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q42.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.0385 (Fisher's exact test), Q value = 0.044

Table S49.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 5(1Q42.3) MUTATED 9 4 5 5 3
AMP PEAK 5(1Q42.3) WILD-TYPE 5 5 2 2 13

Figure S49.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1q42.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S50.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 5(1Q42.3) MUTATED 109 26 40 52
AMP PEAK 5(1Q42.3) WILD-TYPE 99 152 59 2

Figure S50.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q42.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0313 (Fisher's exact test), Q value = 0.036

Table S51.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 5(1Q42.3) MUTATED 57 79 33 16
AMP PEAK 5(1Q42.3) WILD-TYPE 51 103 60 34

Figure S51.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1q42.3' versus 'MRNASEQ_CNMF'

P value = 0.0196 (Fisher's exact test), Q value = 0.023

Table S52.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 5(1Q42.3) MUTATED 92 54 39 42
AMP PEAK 5(1Q42.3) WILD-TYPE 96 69 54 91

Figure S52.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1q42.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00059 (Fisher's exact test), Q value = 8e-04

Table S53.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 5(1Q42.3) MUTATED 66 29 17 34 38 21 22
AMP PEAK 5(1Q42.3) WILD-TYPE 57 24 30 31 70 45 53

Figure S53.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q42.3' versus 'MIRSEQ_CNMF'

P value = 0.00031 (Fisher's exact test), Q value = 0.00044

Table S54.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 5(1Q42.3) MUTATED 82 47 38 43 16
AMP PEAK 5(1Q42.3) WILD-TYPE 82 33 68 90 31

Figure S54.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1q42.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0334 (Fisher's exact test), Q value = 0.038

Table S55.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 5(1Q42.3) MUTATED 94 84 48
AMP PEAK 5(1Q42.3) WILD-TYPE 124 88 92

Figure S55.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q42.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0131 (Fisher's exact test), Q value = 0.015

Table S56.  Gene #5: 'amp_1q42.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 5(1Q42.3) MUTATED 73 42 51
AMP PEAK 5(1Q42.3) WILD-TYPE 90 90 52

Figure S56.  Get High-res Image Gene #5: 'amp_1q42.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_2p24.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S57.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 6(2P24.3) MUTATED 91 6 18 7
AMP PEAK 6(2P24.3) WILD-TYPE 117 172 81 47

Figure S57.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_2p24.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S58.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 6(2P24.3) MUTATED 55 21 21
AMP PEAK 6(2P24.3) WILD-TYPE 99 57 172

Figure S58.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_2p24.3' versus 'RPPA_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S59.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 6(2P24.3) MUTATED 4 6 12 18 30 16 15
AMP PEAK 6(2P24.3) WILD-TYPE 35 75 40 38 54 52 38

Figure S59.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_2p24.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-04 (Fisher's exact test), Q value = 0.00015

Table S60.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 6(2P24.3) MUTATED 12 61 19 9
AMP PEAK 6(2P24.3) WILD-TYPE 96 121 74 41

Figure S60.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_2p24.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S61.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 6(2P24.3) MUTATED 74 16 17 15
AMP PEAK 6(2P24.3) WILD-TYPE 114 107 76 118

Figure S61.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_2p24.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S62.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 6(2P24.3) MUTATED 59 7 14 6 19 11 6
AMP PEAK 6(2P24.3) WILD-TYPE 64 46 33 59 89 55 69

Figure S62.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_2p24.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S63.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 6(2P24.3) MUTATED 67 11 18 16 8
AMP PEAK 6(2P24.3) WILD-TYPE 97 69 88 117 39

Figure S63.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_2p24.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S64.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 6(2P24.3) MUTATED 31 72 17
AMP PEAK 6(2P24.3) WILD-TYPE 187 100 123

Figure S64.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_2p24.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S65.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 6(2P24.3) MUTATED 44 11 17 21
AMP PEAK 6(2P24.3) WILD-TYPE 72 87 75 71

Figure S65.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_2p24.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00041 (Fisher's exact test), Q value = 0.00057

Table S66.  Gene #6: 'amp_2p24.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 6(2P24.3) MUTATED 51 16 26
AMP PEAK 6(2P24.3) WILD-TYPE 112 116 77

Figure S66.  Get High-res Image Gene #6: 'amp_2p24.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_2q13' versus 'MRNA_CHIERARCHICAL'

P value = 0.0292 (Fisher's exact test), Q value = 0.033

Table S67.  Gene #7: 'amp_2q13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 7(2Q13) MUTATED 3 5 1 0 1
AMP PEAK 7(2Q13) WILD-TYPE 11 4 6 7 15

Figure S67.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_2q13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S68.  Gene #7: 'amp_2q13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 7(2Q13) MUTATED 96 1 16 6
AMP PEAK 7(2Q13) WILD-TYPE 112 177 83 48

Figure S68.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #3: 'CN_CNMF'

'amp_2q13' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S69.  Gene #7: 'amp_2q13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 7(2Q13) MUTATED 59 26 11
AMP PEAK 7(2Q13) WILD-TYPE 95 52 182

Figure S69.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_2q13' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S70.  Gene #7: 'amp_2q13' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 7(2Q13) MUTATED 4 4 7 20 31 16 17
AMP PEAK 7(2Q13) WILD-TYPE 35 77 45 36 53 52 36

Figure S70.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_2q13' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S71.  Gene #7: 'amp_2q13' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 7(2Q13) MUTATED 9 61 19 10
AMP PEAK 7(2Q13) WILD-TYPE 99 121 74 40

Figure S71.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_2q13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S72.  Gene #7: 'amp_2q13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 7(2Q13) MUTATED 86 10 14 8
AMP PEAK 7(2Q13) WILD-TYPE 102 113 79 125

Figure S72.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_2q13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S73.  Gene #7: 'amp_2q13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 7(2Q13) MUTATED 73 5 13 2 15 6 4
AMP PEAK 7(2Q13) WILD-TYPE 50 48 34 63 93 60 71

Figure S73.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_2q13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S74.  Gene #7: 'amp_2q13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 7(2Q13) MUTATED 74 7 19 8 9
AMP PEAK 7(2Q13) WILD-TYPE 90 73 87 125 38

Figure S74.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_2q13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S75.  Gene #7: 'amp_2q13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 7(2Q13) MUTATED 24 83 10
AMP PEAK 7(2Q13) WILD-TYPE 194 89 130

Figure S75.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_2q13' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S76.  Gene #7: 'amp_2q13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 7(2Q13) MUTATED 43 7 19 25
AMP PEAK 7(2Q13) WILD-TYPE 73 91 73 67

Figure S76.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_2q13' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S77.  Gene #7: 'amp_2q13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 7(2Q13) MUTATED 54 9 31
AMP PEAK 7(2Q13) WILD-TYPE 109 123 72

Figure S77.  Get High-res Image Gene #7: 'amp_2q13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3p25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S78.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 8(3P25.1) MUTATED 70 1 9 2
AMP PEAK 8(3P25.1) WILD-TYPE 138 177 90 52

Figure S78.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3p25.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S79.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 8(3P25.1) MUTATED 38 19 11
AMP PEAK 8(3P25.1) WILD-TYPE 116 59 182

Figure S79.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3p25.1' versus 'RPPA_CNMF'

P value = 0.00065 (Fisher's exact test), Q value = 0.00088

Table S80.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 8(3P25.1) MUTATED 2 5 4 16 20 10 6
AMP PEAK 8(3P25.1) WILD-TYPE 37 76 48 40 64 58 47

Figure S80.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_3p25.1' versus 'RPPA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S81.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 8(3P25.1) MUTATED 6 44 9 4
AMP PEAK 8(3P25.1) WILD-TYPE 102 138 84 46

Figure S81.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_3p25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S82.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 8(3P25.1) MUTATED 62 4 8 8
AMP PEAK 8(3P25.1) WILD-TYPE 126 119 85 125

Figure S82.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3p25.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S83.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 8(3P25.1) MUTATED 41 0 13 4 15 5 4
AMP PEAK 8(3P25.1) WILD-TYPE 82 53 34 61 93 61 71

Figure S83.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3p25.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S84.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 8(3P25.1) MUTATED 50 4 10 11 5
AMP PEAK 8(3P25.1) WILD-TYPE 114 76 96 122 42

Figure S84.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3p25.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S85.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 8(3P25.1) MUTATED 18 50 12
AMP PEAK 8(3P25.1) WILD-TYPE 200 122 128

Figure S85.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3p25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00329 (Fisher's exact test), Q value = 0.0042

Table S86.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 8(3P25.1) MUTATED 27 6 18 14
AMP PEAK 8(3P25.1) WILD-TYPE 89 92 74 78

Figure S86.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3p25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00454 (Fisher's exact test), Q value = 0.0057

Table S87.  Gene #8: 'amp_3p25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 8(3P25.1) MUTATED 36 11 18
AMP PEAK 8(3P25.1) WILD-TYPE 127 121 85

Figure S87.  Get High-res Image Gene #8: 'amp_3p25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3p14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S88.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 9(3P14.1) MUTATED 55 1 8 1
AMP PEAK 9(3P14.1) WILD-TYPE 153 177 91 53

Figure S88.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3p14.1' versus 'METHLYATION_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.00034

Table S89.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 9(3P14.1) MUTATED 31 13 12
AMP PEAK 9(3P14.1) WILD-TYPE 123 65 181

Figure S89.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3p14.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.0192 (Fisher's exact test), Q value = 0.022

Table S90.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 9(3P14.1) MUTATED 5 28 12 3
AMP PEAK 9(3P14.1) WILD-TYPE 103 154 81 47

Figure S90.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_3p14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S91.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 9(3P14.1) MUTATED 46 3 7 9
AMP PEAK 9(3P14.1) WILD-TYPE 142 120 86 124

Figure S91.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3p14.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S92.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 9(3P14.1) MUTATED 29 0 9 4 14 4 5
AMP PEAK 9(3P14.1) WILD-TYPE 94 53 38 61 94 62 70

Figure S92.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3p14.1' versus 'MIRSEQ_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S93.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 9(3P14.1) MUTATED 37 3 10 10 4
AMP PEAK 9(3P14.1) WILD-TYPE 127 77 96 123 43

Figure S93.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3p14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00044 (Fisher's exact test), Q value = 0.00061

Table S94.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 9(3P14.1) MUTATED 17 35 12
AMP PEAK 9(3P14.1) WILD-TYPE 201 137 128

Figure S94.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3p14.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0138 (Fisher's exact test), Q value = 0.016

Table S95.  Gene #9: 'amp_3p14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 9(3P14.1) MUTATED 21 5 16 10
AMP PEAK 9(3P14.1) WILD-TYPE 95 93 76 82

Figure S95.  Get High-res Image Gene #9: 'amp_3p14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3q26.2' versus 'MRNA_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S96.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 10(3Q26.2) MUTATED 1 11 1 0
AMP PEAK 10(3Q26.2) WILD-TYPE 14 6 13 7

Figure S96.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_3q26.2' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S97.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 10(3Q26.2) MUTATED 4 8 1 0 0
AMP PEAK 10(3Q26.2) WILD-TYPE 10 1 6 7 16

Figure S97.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_3q26.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S98.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 10(3Q26.2) MUTATED 154 2 12 7
AMP PEAK 10(3Q26.2) WILD-TYPE 54 176 87 47

Figure S98.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3q26.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S99.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 10(3Q26.2) MUTATED 88 36 26
AMP PEAK 10(3Q26.2) WILD-TYPE 66 42 167

Figure S99.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3q26.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S100.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 10(3Q26.2) MUTATED 5 7 12 27 42 24 17
AMP PEAK 10(3Q26.2) WILD-TYPE 34 74 40 29 42 44 36

Figure S100.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_3q26.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S101.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 10(3Q26.2) MUTATED 10 80 32 12
AMP PEAK 10(3Q26.2) WILD-TYPE 98 102 61 38

Figure S101.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_3q26.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S102.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 10(3Q26.2) MUTATED 126 5 23 20
AMP PEAK 10(3Q26.2) WILD-TYPE 62 118 70 113

Figure S102.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3q26.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S103.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 10(3Q26.2) MUTATED 95 0 26 5 26 14 8
AMP PEAK 10(3Q26.2) WILD-TYPE 28 53 21 60 82 52 67

Figure S103.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3q26.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S104.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 10(3Q26.2) MUTATED 111 7 21 20 12
AMP PEAK 10(3Q26.2) WILD-TYPE 53 73 85 113 35

Figure S104.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3q26.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S105.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 10(3Q26.2) MUTATED 37 111 23
AMP PEAK 10(3Q26.2) WILD-TYPE 181 61 117

Figure S105.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3q26.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S106.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 10(3Q26.2) MUTATED 61 18 29 35
AMP PEAK 10(3Q26.2) WILD-TYPE 55 80 63 57

Figure S106.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3q26.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S107.  Gene #10: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 10(3Q26.2) MUTATED 78 25 40
AMP PEAK 10(3Q26.2) WILD-TYPE 85 107 63

Figure S107.  Get High-res Image Gene #10: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3q26.2' versus 'MRNA_CNMF'

P value = 0.00045 (Fisher's exact test), Q value = 0.00063

Table S108.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 11(3Q26.2) MUTATED 1 10 1 0
AMP PEAK 11(3Q26.2) WILD-TYPE 14 7 13 7

Figure S108.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_3q26.2' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S109.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 11(3Q26.2) MUTATED 3 8 1 0 0
AMP PEAK 11(3Q26.2) WILD-TYPE 11 1 6 7 16

Figure S109.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_3q26.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S110.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 11(3Q26.2) MUTATED 147 1 11 5
AMP PEAK 11(3Q26.2) WILD-TYPE 61 177 88 49

Figure S110.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3q26.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S111.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 11(3Q26.2) MUTATED 85 34 22
AMP PEAK 11(3Q26.2) WILD-TYPE 69 44 171

Figure S111.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3q26.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S112.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 11(3Q26.2) MUTATED 5 6 12 24 42 22 17
AMP PEAK 11(3Q26.2) WILD-TYPE 34 75 40 32 42 46 36

Figure S112.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_3q26.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S113.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 11(3Q26.2) MUTATED 8 77 30 13
AMP PEAK 11(3Q26.2) WILD-TYPE 100 105 63 37

Figure S113.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_3q26.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S114.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 11(3Q26.2) MUTATED 120 6 20 17
AMP PEAK 11(3Q26.2) WILD-TYPE 68 117 73 116

Figure S114.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3q26.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S115.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 11(3Q26.2) MUTATED 92 0 24 5 24 11 7
AMP PEAK 11(3Q26.2) WILD-TYPE 31 53 23 60 84 55 68

Figure S115.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3q26.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S116.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 11(3Q26.2) MUTATED 106 6 19 18 11
AMP PEAK 11(3Q26.2) WILD-TYPE 58 74 87 115 36

Figure S116.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3q26.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S117.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 11(3Q26.2) MUTATED 35 106 19
AMP PEAK 11(3Q26.2) WILD-TYPE 183 66 121

Figure S117.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3q26.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S118.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 11(3Q26.2) MUTATED 59 15 26 34
AMP PEAK 11(3Q26.2) WILD-TYPE 57 83 66 58

Figure S118.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3q26.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S119.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 11(3Q26.2) MUTATED 77 19 38
AMP PEAK 11(3Q26.2) WILD-TYPE 86 113 65

Figure S119.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_4p16.3' versus 'MRNA_CNMF'

P value = 0.0426 (Fisher's exact test), Q value = 0.048

Table S120.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 12(4P16.3) MUTATED 1 5 0 0
AMP PEAK 12(4P16.3) WILD-TYPE 14 12 14 7

Figure S120.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_4p16.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00751 (Fisher's exact test), Q value = 0.0092

Table S121.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 12(4P16.3) MUTATED 2 4 0 0 0
AMP PEAK 12(4P16.3) WILD-TYPE 12 5 7 7 16

Figure S121.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_4p16.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S122.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 12(4P16.3) MUTATED 49 2 0 1
AMP PEAK 12(4P16.3) WILD-TYPE 159 176 99 53

Figure S122.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_4p16.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S123.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 12(4P16.3) MUTATED 18 19 6
AMP PEAK 12(4P16.3) WILD-TYPE 136 59 187

Figure S123.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_4p16.3' versus 'RPPA_CNMF'

P value = 0.00016 (Fisher's exact test), Q value = 0.00023

Table S124.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 12(4P16.3) MUTATED 1 1 2 12 14 6 4
AMP PEAK 12(4P16.3) WILD-TYPE 38 80 50 44 70 62 49

Figure S124.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_4p16.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S125.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 12(4P16.3) MUTATED 1 30 8 1
AMP PEAK 12(4P16.3) WILD-TYPE 107 152 85 49

Figure S125.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_4p16.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S126.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 12(4P16.3) MUTATED 46 3 0 2
AMP PEAK 12(4P16.3) WILD-TYPE 142 120 93 131

Figure S126.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_4p16.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S127.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 12(4P16.3) MUTATED 39 0 3 0 8 0 1
AMP PEAK 12(4P16.3) WILD-TYPE 84 53 44 65 100 66 74

Figure S127.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_4p16.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S128.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 12(4P16.3) MUTATED 39 1 4 4 2
AMP PEAK 12(4P16.3) WILD-TYPE 125 79 102 129 45

Figure S128.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_4p16.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S129.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 12(4P16.3) MUTATED 7 39 4
AMP PEAK 12(4P16.3) WILD-TYPE 211 133 136

Figure S129.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_4p16.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00616 (Fisher's exact test), Q value = 0.0076

Table S130.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 12(4P16.3) MUTATED 22 5 7 7
AMP PEAK 12(4P16.3) WILD-TYPE 94 93 85 85

Figure S130.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00109 (Fisher's exact test), Q value = 0.0014

Table S131.  Gene #12: 'amp_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 12(4P16.3) MUTATED 27 5 9
AMP PEAK 12(4P16.3) WILD-TYPE 136 127 94

Figure S131.  Get High-res Image Gene #12: 'amp_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_5p15.33' versus 'MRNA_CHIERARCHICAL'

P value = 0.044 (Fisher's exact test), Q value = 0.05

Table S132.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 13(5P15.33) MUTATED 2 4 1 1 0
AMP PEAK 13(5P15.33) WILD-TYPE 12 5 6 6 16

Figure S132.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_5p15.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S133.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 13(5P15.33) MUTATED 83 0 3 3
AMP PEAK 13(5P15.33) WILD-TYPE 125 178 96 51

Figure S133.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #3: 'CN_CNMF'

'amp_5p15.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S134.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 13(5P15.33) MUTATED 51 17 8
AMP PEAK 13(5P15.33) WILD-TYPE 103 61 185

Figure S134.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_5p15.33' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S135.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 13(5P15.33) MUTATED 0 6 5 16 26 12 9
AMP PEAK 13(5P15.33) WILD-TYPE 39 75 47 40 58 56 44

Figure S135.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_5p15.33' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S136.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 13(5P15.33) MUTATED 5 50 15 4
AMP PEAK 13(5P15.33) WILD-TYPE 103 132 78 46

Figure S136.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_5p15.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S137.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 13(5P15.33) MUTATED 73 7 6 2
AMP PEAK 13(5P15.33) WILD-TYPE 115 116 87 131

Figure S137.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_5p15.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S138.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 13(5P15.33) MUTATED 54 3 13 2 11 5 0
AMP PEAK 13(5P15.33) WILD-TYPE 69 50 34 63 97 61 75

Figure S138.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_5p15.33' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S139.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 13(5P15.33) MUTATED 61 6 10 5 6
AMP PEAK 13(5P15.33) WILD-TYPE 103 74 96 128 41

Figure S139.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_5p15.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S140.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 13(5P15.33) MUTATED 22 61 5
AMP PEAK 13(5P15.33) WILD-TYPE 196 111 135

Figure S140.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_5p15.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S141.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 13(5P15.33) MUTATED 41 3 15 16
AMP PEAK 13(5P15.33) WILD-TYPE 75 95 77 76

Figure S141.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_5p15.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S142.  Gene #13: 'amp_5p15.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 13(5P15.33) MUTATED 48 8 19
AMP PEAK 13(5P15.33) WILD-TYPE 115 124 84

Figure S142.  Get High-res Image Gene #13: 'amp_5p15.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_5q35.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S143.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 14(5Q35.3) MUTATED 54 0 1 2
AMP PEAK 14(5Q35.3) WILD-TYPE 154 178 98 52

Figure S143.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_5q35.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S144.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 14(5Q35.3) MUTATED 27 16 7
AMP PEAK 14(5Q35.3) WILD-TYPE 127 62 186

Figure S144.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_5q35.3' versus 'RPPA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S145.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 14(5Q35.3) MUTATED 1 3 3 7 23 5 4
AMP PEAK 14(5Q35.3) WILD-TYPE 38 78 49 49 61 63 49

Figure S145.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_5q35.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.00035 (Fisher's exact test), Q value = 0.00049

Table S146.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 14(5Q35.3) MUTATED 4 33 7 2
AMP PEAK 14(5Q35.3) WILD-TYPE 104 149 86 48

Figure S146.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_5q35.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S147.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 14(5Q35.3) MUTATED 45 3 6 3
AMP PEAK 14(5Q35.3) WILD-TYPE 143 120 87 130

Figure S147.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_5q35.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S148.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 14(5Q35.3) MUTATED 35 2 9 1 7 2 1
AMP PEAK 14(5Q35.3) WILD-TYPE 88 51 38 64 101 64 74

Figure S148.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_5q35.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S149.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 14(5Q35.3) MUTATED 40 5 5 4 2
AMP PEAK 14(5Q35.3) WILD-TYPE 124 75 101 129 45

Figure S149.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_5q35.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S150.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 14(5Q35.3) MUTATED 10 42 4
AMP PEAK 14(5Q35.3) WILD-TYPE 208 130 136

Figure S150.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_5q35.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-04 (Fisher's exact test), Q value = 0.00094

Table S151.  Gene #14: 'amp_5q35.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 14(5Q35.3) MUTATED 27 5 16
AMP PEAK 14(5Q35.3) WILD-TYPE 136 127 87

Figure S151.  Get High-res Image Gene #14: 'amp_5q35.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6p24.2' versus 'MRNA_CNMF'

P value = 0.00471 (Fisher's exact test), Q value = 0.0059

Table S152.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 15(6P24.2) MUTATED 1 9 2 0
AMP PEAK 15(6P24.2) WILD-TYPE 14 8 12 7

Figure S152.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_6p24.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00058 (Fisher's exact test), Q value = 0.00079

Table S153.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 15(6P24.2) MUTATED 3 7 0 0 2
AMP PEAK 15(6P24.2) WILD-TYPE 11 2 7 7 14

Figure S153.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_6p24.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S154.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 15(6P24.2) MUTATED 105 4 5 3
AMP PEAK 15(6P24.2) WILD-TYPE 103 174 94 51

Figure S154.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_6p24.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S155.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 15(6P24.2) MUTATED 61 24 15
AMP PEAK 15(6P24.2) WILD-TYPE 93 54 178

Figure S155.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6p24.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S156.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 15(6P24.2) MUTATED 2 6 5 22 29 11 11
AMP PEAK 15(6P24.2) WILD-TYPE 37 75 47 34 55 57 42

Figure S156.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_6p24.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S157.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 15(6P24.2) MUTATED 5 57 18 6
AMP PEAK 15(6P24.2) WILD-TYPE 103 125 75 44

Figure S157.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_6p24.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S158.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 15(6P24.2) MUTATED 89 6 7 15
AMP PEAK 15(6P24.2) WILD-TYPE 99 117 86 118

Figure S158.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_6p24.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S159.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 15(6P24.2) MUTATED 68 0 11 5 19 8 6
AMP PEAK 15(6P24.2) WILD-TYPE 55 53 36 60 89 58 69

Figure S159.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6p24.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S160.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 15(6P24.2) MUTATED 75 6 11 12 10
AMP PEAK 15(6P24.2) WILD-TYPE 89 74 95 121 37

Figure S160.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_6p24.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S161.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 15(6P24.2) MUTATED 25 77 12
AMP PEAK 15(6P24.2) WILD-TYPE 193 95 128

Figure S161.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6p24.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S162.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 15(6P24.2) MUTATED 49 10 20 17
AMP PEAK 15(6P24.2) WILD-TYPE 67 88 72 75

Figure S162.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6p24.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S163.  Gene #15: 'amp_6p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 15(6P24.2) MUTATED 55 15 26
AMP PEAK 15(6P24.2) WILD-TYPE 108 117 77

Figure S163.  Get High-res Image Gene #15: 'amp_6p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6q25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S164.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 16(6Q25.1) MUTATED 78 3 6 1
AMP PEAK 16(6Q25.1) WILD-TYPE 130 175 93 53

Figure S164.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_6q25.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S165.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 16(6Q25.1) MUTATED 51 12 16
AMP PEAK 16(6Q25.1) WILD-TYPE 103 66 177

Figure S165.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6q25.1' versus 'RPPA_CNMF'

P value = 0.00375 (Fisher's exact test), Q value = 0.0047

Table S166.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 16(6Q25.1) MUTATED 3 5 6 11 24 11 7
AMP PEAK 16(6Q25.1) WILD-TYPE 36 76 46 45 60 57 46

Figure S166.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_6q25.1' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S167.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 16(6Q25.1) MUTATED 4 41 17 5
AMP PEAK 16(6Q25.1) WILD-TYPE 104 141 76 45

Figure S167.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_6q25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S168.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 16(6Q25.1) MUTATED 56 7 7 17
AMP PEAK 16(6Q25.1) WILD-TYPE 132 116 86 116

Figure S168.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_6q25.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S169.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 16(6Q25.1) MUTATED 40 0 9 6 15 11 6
AMP PEAK 16(6Q25.1) WILD-TYPE 83 53 38 59 93 55 69

Figure S169.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6q25.1' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S170.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 16(6Q25.1) MUTATED 48 9 10 12 9
AMP PEAK 16(6Q25.1) WILD-TYPE 116 71 96 121 38

Figure S170.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_6q25.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S171.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 16(6Q25.1) MUTATED 26 50 12
AMP PEAK 16(6Q25.1) WILD-TYPE 192 122 128

Figure S171.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6q25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.011 (Fisher's exact test), Q value = 0.013

Table S172.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 16(6Q25.1) MUTATED 32 10 15 19
AMP PEAK 16(6Q25.1) WILD-TYPE 84 88 77 73

Figure S172.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6q25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0176 (Fisher's exact test), Q value = 0.021

Table S173.  Gene #16: 'amp_6q25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 16(6Q25.1) MUTATED 41 16 19
AMP PEAK 16(6Q25.1) WILD-TYPE 122 116 84

Figure S173.  Get High-res Image Gene #16: 'amp_6q25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_7q31.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S174.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 17(7Q31.2) MUTATED 62 4 18 9
AMP PEAK 17(7Q31.2) WILD-TYPE 146 174 81 45

Figure S174.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_7q31.2' versus 'METHLYATION_CNMF'

P value = 4e-04 (Fisher's exact test), Q value = 0.00056

Table S175.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 17(7Q31.2) MUTATED 42 10 22
AMP PEAK 17(7Q31.2) WILD-TYPE 112 68 171

Figure S175.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_7q31.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00127 (Fisher's exact test), Q value = 0.0017

Table S176.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 17(7Q31.2) MUTATED 8 44 12 6
AMP PEAK 17(7Q31.2) WILD-TYPE 100 138 81 44

Figure S176.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_7q31.2' versus 'MRNASEQ_CNMF'

P value = 0.00096 (Fisher's exact test), Q value = 0.0013

Table S177.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 17(7Q31.2) MUTATED 50 15 12 16
AMP PEAK 17(7Q31.2) WILD-TYPE 138 108 81 117

Figure S177.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_7q31.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00012 (Fisher's exact test), Q value = 0.00018

Table S178.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 17(7Q31.2) MUTATED 34 8 13 2 19 10 7
AMP PEAK 17(7Q31.2) WILD-TYPE 89 45 34 63 89 56 68

Figure S178.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_7q31.2' versus 'MIRSEQ_CNMF'

P value = 0.00052 (Fisher's exact test), Q value = 0.00072

Table S179.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 17(7Q31.2) MUTATED 46 15 11 15 6
AMP PEAK 17(7Q31.2) WILD-TYPE 118 65 95 118 41

Figure S179.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_7q31.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0048 (Fisher's exact test), Q value = 0.006

Table S180.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 17(7Q31.2) MUTATED 34 43 16
AMP PEAK 17(7Q31.2) WILD-TYPE 184 129 124

Figure S180.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_7q31.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00229 (Fisher's exact test), Q value = 0.003

Table S181.  Gene #17: 'amp_7q31.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 17(7Q31.2) MUTATED 32 8 18 14
AMP PEAK 17(7Q31.2) WILD-TYPE 84 90 74 78

Figure S181.  Get High-res Image Gene #17: 'amp_7q31.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8p11.22' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S182.  Gene #18: 'amp_8p11.22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 18(8P11.22) MUTATED 74 7 41 4
AMP PEAK 18(8P11.22) WILD-TYPE 134 171 58 50

Figure S182.  Get High-res Image Gene #18: 'amp_8p11.22' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.22' versus 'RPPA_CHIERARCHICAL'

P value = 0.00023 (Fisher's exact test), Q value = 0.00033

Table S183.  Gene #18: 'amp_8p11.22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 18(8P11.22) MUTATED 15 37 37 13
AMP PEAK 18(8P11.22) WILD-TYPE 93 145 56 37

Figure S183.  Get High-res Image Gene #18: 'amp_8p11.22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8p11.22' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.008 (Fisher's exact test), Q value = 0.0097

Table S184.  Gene #18: 'amp_8p11.22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 18(8P11.22) MUTATED 30 9 9 9 36 22 11
AMP PEAK 18(8P11.22) WILD-TYPE 93 44 38 56 72 44 64

Figure S184.  Get High-res Image Gene #18: 'amp_8p11.22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8p11.22' versus 'MIRSEQ_CNMF'

P value = 0.0367 (Fisher's exact test), Q value = 0.042

Table S185.  Gene #18: 'amp_8p11.22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 18(8P11.22) MUTATED 47 23 15 31 8
AMP PEAK 18(8P11.22) WILD-TYPE 117 57 91 102 39

Figure S185.  Get High-res Image Gene #18: 'amp_8p11.22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8p11.21' versus 'MRNA_CNMF'

P value = 0.0169 (Fisher's exact test), Q value = 0.02

Table S186.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 19(8P11.21) MUTATED 1 8 2 0
AMP PEAK 19(8P11.21) WILD-TYPE 14 9 12 7

Figure S186.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_8p11.21' versus 'MRNA_CHIERARCHICAL'

P value = 0.0296 (Fisher's exact test), Q value = 0.034

Table S187.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 19(8P11.21) MUTATED 4 5 0 0 2
AMP PEAK 19(8P11.21) WILD-TYPE 10 4 7 7 14

Figure S187.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_8p11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S188.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 19(8P11.21) MUTATED 109 6 41 6
AMP PEAK 19(8P11.21) WILD-TYPE 99 172 58 48

Figure S188.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.21' versus 'METHLYATION_CNMF'

P value = 0.0118 (Fisher's exact test), Q value = 0.014

Table S189.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 19(8P11.21) MUTATED 62 27 49
AMP PEAK 19(8P11.21) WILD-TYPE 92 51 144

Figure S189.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8p11.21' versus 'RPPA_CNMF'

P value = 0.00155 (Fisher's exact test), Q value = 0.002

Table S190.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 19(8P11.21) MUTATED 8 13 13 23 37 18 17
AMP PEAK 19(8P11.21) WILD-TYPE 31 68 39 33 47 50 36

Figure S190.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8p11.21' versus 'RPPA_CHIERARCHICAL'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S191.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 19(8P11.21) MUTATED 15 58 39 17
AMP PEAK 19(8P11.21) WILD-TYPE 93 124 54 33

Figure S191.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8p11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S192.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 19(8P11.21) MUTATED 86 28 18 30
AMP PEAK 19(8P11.21) WILD-TYPE 102 95 75 103

Figure S192.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8p11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S193.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 19(8P11.21) MUTATED 59 9 19 10 34 20 11
AMP PEAK 19(8P11.21) WILD-TYPE 64 44 28 55 74 46 64

Figure S193.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S194.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 19(8P11.21) MUTATED 79 22 17 30 11
AMP PEAK 19(8P11.21) WILD-TYPE 85 58 89 103 36

Figure S194.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8p11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S195.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 19(8P11.21) MUTATED 54 74 31
AMP PEAK 19(8P11.21) WILD-TYPE 164 98 109

Figure S195.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00111 (Fisher's exact test), Q value = 0.0015

Table S196.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 19(8P11.21) MUTATED 55 23 27 26
AMP PEAK 19(8P11.21) WILD-TYPE 61 75 65 66

Figure S196.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8p11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00385 (Fisher's exact test), Q value = 0.0049

Table S197.  Gene #19: 'amp_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 19(8P11.21) MUTATED 69 33 29
AMP PEAK 19(8P11.21) WILD-TYPE 94 99 74

Figure S197.  Get High-res Image Gene #19: 'amp_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNA_CNMF'

P value = 0.0237 (Fisher's exact test), Q value = 0.027

Table S198.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 20(8Q24.21) MUTATED 1 8 3 0
AMP PEAK 20(8Q24.21) WILD-TYPE 14 9 11 7

Figure S198.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_8q24.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S199.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 20(8Q24.21) MUTATED 151 8 44 6
AMP PEAK 20(8Q24.21) WILD-TYPE 57 170 55 48

Figure S199.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8q24.21' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S200.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 20(8Q24.21) MUTATED 88 39 54
AMP PEAK 20(8Q24.21) WILD-TYPE 66 39 139

Figure S200.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8q24.21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S201.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 20(8Q24.21) MUTATED 9 14 15 28 47 25 25
AMP PEAK 20(8Q24.21) WILD-TYPE 30 67 37 28 37 43 28

Figure S201.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8q24.21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S202.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 20(8Q24.21) MUTATED 16 82 44 21
AMP PEAK 20(8Q24.21) WILD-TYPE 92 100 49 29

Figure S202.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S203.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 20(8Q24.21) MUTATED 119 31 24 34
AMP PEAK 20(8Q24.21) WILD-TYPE 69 92 69 99

Figure S203.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8q24.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S204.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 20(8Q24.21) MUTATED 86 10 27 8 39 26 12
AMP PEAK 20(8Q24.21) WILD-TYPE 37 43 20 57 69 40 63

Figure S204.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8q24.21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S205.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 20(8Q24.21) MUTATED 110 23 22 35 16
AMP PEAK 20(8Q24.21) WILD-TYPE 54 57 84 98 31

Figure S205.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8q24.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S206.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 20(8Q24.21) MUTATED 62 109 35
AMP PEAK 20(8Q24.21) WILD-TYPE 156 63 105

Figure S206.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_8q24.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S207.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 20(8Q24.21) MUTATED 70 26 35 38
AMP PEAK 20(8Q24.21) WILD-TYPE 46 72 57 54

Figure S207.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8q24.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S208.  Gene #20: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 20(8Q24.21) MUTATED 90 35 44
AMP PEAK 20(8Q24.21) WILD-TYPE 73 97 59

Figure S208.  Get High-res Image Gene #20: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNA_CNMF'

P value = 0.00426 (Fisher's exact test), Q value = 0.0054

Table S209.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 21(8Q24.21) MUTATED 1 9 2 0
AMP PEAK 21(8Q24.21) WILD-TYPE 14 8 12 7

Figure S209.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_8q24.21' versus 'MRNA_CHIERARCHICAL'

P value = 0.00611 (Fisher's exact test), Q value = 0.0075

Table S210.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 21(8Q24.21) MUTATED 4 6 0 0 2
AMP PEAK 21(8Q24.21) WILD-TYPE 10 3 7 7 14

Figure S210.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_8q24.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S211.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 21(8Q24.21) MUTATED 152 13 43 7
AMP PEAK 21(8Q24.21) WILD-TYPE 56 165 56 47

Figure S211.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8q24.21' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S212.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 21(8Q24.21) MUTATED 87 39 59
AMP PEAK 21(8Q24.21) WILD-TYPE 67 39 134

Figure S212.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8q24.21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S213.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 21(8Q24.21) MUTATED 9 13 16 28 51 25 28
AMP PEAK 21(8Q24.21) WILD-TYPE 30 68 36 28 33 43 25

Figure S213.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8q24.21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S214.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 21(8Q24.21) MUTATED 16 85 45 24
AMP PEAK 21(8Q24.21) WILD-TYPE 92 97 48 26

Figure S214.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S215.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 21(8Q24.21) MUTATED 124 32 23 35
AMP PEAK 21(8Q24.21) WILD-TYPE 64 91 70 98

Figure S215.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8q24.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S216.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 21(8Q24.21) MUTATED 91 11 25 9 39 25 14
AMP PEAK 21(8Q24.21) WILD-TYPE 32 42 22 56 69 41 61

Figure S216.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8q24.21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S217.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 21(8Q24.21) MUTATED 112 24 23 36 16
AMP PEAK 21(8Q24.21) WILD-TYPE 52 56 83 97 31

Figure S217.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8q24.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S218.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 21(8Q24.21) MUTATED 64 109 38
AMP PEAK 21(8Q24.21) WILD-TYPE 154 63 102

Figure S218.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_8q24.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S219.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 21(8Q24.21) MUTATED 72 29 34 39
AMP PEAK 21(8Q24.21) WILD-TYPE 44 69 58 53

Figure S219.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8q24.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S220.  Gene #21: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 21(8Q24.21) MUTATED 94 39 41
AMP PEAK 21(8Q24.21) WILD-TYPE 69 93 62

Figure S220.  Get High-res Image Gene #21: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_9p24.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S221.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 22(9P24.2) MUTATED 60 4 1 0
AMP PEAK 22(9P24.2) WILD-TYPE 148 174 98 54

Figure S221.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_9p24.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S222.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 22(9P24.2) MUTATED 35 12 7
AMP PEAK 22(9P24.2) WILD-TYPE 119 66 186

Figure S222.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_9p24.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S223.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 22(9P24.2) MUTATED 1 1 4 16 23 7 3
AMP PEAK 22(9P24.2) WILD-TYPE 38 80 48 40 61 61 50

Figure S223.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_9p24.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S224.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 22(9P24.2) MUTATED 1 38 15 1
AMP PEAK 22(9P24.2) WILD-TYPE 107 144 78 49

Figure S224.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_9p24.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S225.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 22(9P24.2) MUTATED 53 4 5 3
AMP PEAK 22(9P24.2) WILD-TYPE 135 119 88 130

Figure S225.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_9p24.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S226.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 22(9P24.2) MUTATED 41 0 6 2 12 4 0
AMP PEAK 22(9P24.2) WILD-TYPE 82 53 41 63 96 62 75

Figure S226.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_9p24.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S227.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 22(9P24.2) MUTATED 49 5 7 2 1
AMP PEAK 22(9P24.2) WILD-TYPE 115 75 99 131 46

Figure S227.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_9p24.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S228.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 22(9P24.2) MUTATED 18 43 3
AMP PEAK 22(9P24.2) WILD-TYPE 200 129 137

Figure S228.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_9p24.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 4e-04 (Fisher's exact test), Q value = 0.00056

Table S229.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 22(9P24.2) MUTATED 28 5 9 10
AMP PEAK 22(9P24.2) WILD-TYPE 88 93 83 82

Figure S229.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_9p24.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00023 (Fisher's exact test), Q value = 0.00033

Table S230.  Gene #22: 'amp_9p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 22(9P24.2) MUTATED 32 6 14
AMP PEAK 22(9P24.2) WILD-TYPE 131 126 89

Figure S230.  Get High-res Image Gene #22: 'amp_9p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_9q34.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.0135 (Fisher's exact test), Q value = 0.016

Table S231.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 23(9Q34.3) MUTATED 0 4 1 0 1
AMP PEAK 23(9Q34.3) WILD-TYPE 14 5 6 7 15

Figure S231.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_9q34.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S232.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 23(9Q34.3) MUTATED 36 1 1 1
AMP PEAK 23(9Q34.3) WILD-TYPE 172 177 98 53

Figure S232.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_9q34.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S233.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 23(9Q34.3) MUTATED 18 10 2
AMP PEAK 23(9Q34.3) WILD-TYPE 136 68 191

Figure S233.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_9q34.3' versus 'RPPA_CNMF'

P value = 0.0105 (Fisher's exact test), Q value = 0.013

Table S234.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 23(9Q34.3) MUTATED 1 1 1 6 12 6 5
AMP PEAK 23(9Q34.3) WILD-TYPE 38 80 51 50 72 62 48

Figure S234.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_9q34.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.00205 (Fisher's exact test), Q value = 0.0027

Table S235.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 23(9Q34.3) MUTATED 1 22 6 3
AMP PEAK 23(9Q34.3) WILD-TYPE 107 160 87 47

Figure S235.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_9q34.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S236.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 23(9Q34.3) MUTATED 33 3 1 1
AMP PEAK 23(9Q34.3) WILD-TYPE 155 120 92 132

Figure S236.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_9q34.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S237.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 23(9Q34.3) MUTATED 30 2 2 0 2 2 0
AMP PEAK 23(9Q34.3) WILD-TYPE 93 51 45 65 106 64 75

Figure S237.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_9q34.3' versus 'MIRSEQ_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S238.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 23(9Q34.3) MUTATED 24 3 4 2 2
AMP PEAK 23(9Q34.3) WILD-TYPE 140 77 102 131 45

Figure S238.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_9q34.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S239.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 23(9Q34.3) MUTATED 7 26 2
AMP PEAK 23(9Q34.3) WILD-TYPE 211 146 138

Figure S239.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_9q34.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00785 (Fisher's exact test), Q value = 0.0096

Table S240.  Gene #23: 'amp_9q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 23(9Q34.3) MUTATED 18 3 9
AMP PEAK 23(9Q34.3) WILD-TYPE 145 129 94

Figure S240.  Get High-res Image Gene #23: 'amp_9q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_10q22.2' versus 'MRNA_CNMF'

P value = 0.0209 (Fisher's exact test), Q value = 0.024

Table S241.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 24(10Q22.2) MUTATED 2 7 9 1
AMP PEAK 24(10Q22.2) WILD-TYPE 13 10 5 6

Figure S241.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_10q22.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S242.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 24(10Q22.2) MUTATED 80 25 26 12
AMP PEAK 24(10Q22.2) WILD-TYPE 128 153 73 42

Figure S242.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_10q22.2' versus 'MRNASEQ_CNMF'

P value = 0.00012 (Fisher's exact test), Q value = 0.00018

Table S243.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 24(10Q22.2) MUTATED 67 30 10 35
AMP PEAK 24(10Q22.2) WILD-TYPE 121 93 83 98

Figure S243.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_10q22.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00236 (Fisher's exact test), Q value = 0.003

Table S244.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 24(10Q22.2) MUTATED 49 15 10 10 22 21 15
AMP PEAK 24(10Q22.2) WILD-TYPE 74 38 37 55 86 45 60

Figure S244.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_10q22.2' versus 'MIRSEQ_CNMF'

P value = 0.00089 (Fisher's exact test), Q value = 0.0012

Table S245.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 24(10Q22.2) MUTATED 62 14 18 36 11
AMP PEAK 24(10Q22.2) WILD-TYPE 102 66 88 97 36

Figure S245.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_10q22.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00019 (Fisher's exact test), Q value = 0.00027

Table S246.  Gene #24: 'amp_10q22.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 24(10Q22.2) MUTATED 37 31 22 8
AMP PEAK 24(10Q22.2) WILD-TYPE 79 67 70 84

Figure S246.  Get High-res Image Gene #24: 'amp_10q22.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_11p11.2' versus 'MRNA_CNMF'

P value = 0.00266 (Fisher's exact test), Q value = 0.0034

Table S247.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 25(11P11.2) MUTATED 0 6 0 0
AMP PEAK 25(11P11.2) WILD-TYPE 15 11 14 7

Figure S247.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_11p11.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00796 (Fisher's exact test), Q value = 0.0097

Table S248.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 25(11P11.2) MUTATED 2 4 0 0 0
AMP PEAK 25(11P11.2) WILD-TYPE 12 5 7 7 16

Figure S248.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_11p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S249.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 25(11P11.2) MUTATED 48 0 3 1
AMP PEAK 25(11P11.2) WILD-TYPE 160 178 96 53

Figure S249.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11p11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S250.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 25(11P11.2) MUTATED 26 12 6
AMP PEAK 25(11P11.2) WILD-TYPE 128 66 187

Figure S250.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11p11.2' versus 'RPPA_CNMF'

P value = 0.00153 (Fisher's exact test), Q value = 0.002

Table S251.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 25(11P11.2) MUTATED 2 1 3 12 13 6 6
AMP PEAK 25(11P11.2) WILD-TYPE 37 80 49 44 71 62 47

Figure S251.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_11p11.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00906 (Fisher's exact test), Q value = 0.011

Table S252.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 25(11P11.2) MUTATED 3 26 10 4
AMP PEAK 25(11P11.2) WILD-TYPE 105 156 83 46

Figure S252.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_11p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S253.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 25(11P11.2) MUTATED 43 2 1 6
AMP PEAK 25(11P11.2) WILD-TYPE 145 121 92 127

Figure S253.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11p11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S254.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 25(11P11.2) MUTATED 35 1 3 2 6 4 1
AMP PEAK 25(11P11.2) WILD-TYPE 88 52 44 63 102 62 74

Figure S254.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11p11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S255.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 25(11P11.2) MUTATED 34 3 3 6 5
AMP PEAK 25(11P11.2) WILD-TYPE 130 77 103 127 42

Figure S255.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11p11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S256.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 25(11P11.2) MUTATED 11 36 4
AMP PEAK 25(11P11.2) WILD-TYPE 207 136 136

Figure S256.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11p11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0273 (Fisher's exact test), Q value = 0.031

Table S257.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 25(11P11.2) MUTATED 20 5 9 7
AMP PEAK 25(11P11.2) WILD-TYPE 96 93 83 85

Figure S257.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_11p11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0196 (Fisher's exact test), Q value = 0.023

Table S258.  Gene #25: 'amp_11p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 25(11P11.2) MUTATED 21 6 14
AMP PEAK 25(11P11.2) WILD-TYPE 142 126 89

Figure S258.  Get High-res Image Gene #25: 'amp_11p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11q13.2' versus 'MRNA_CNMF'

P value = 0.00058 (Fisher's exact test), Q value = 0.00079

Table S259.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 26(11Q13.2) MUTATED 0 7 0 0
AMP PEAK 26(11Q13.2) WILD-TYPE 15 10 14 7

Figure S259.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_11q13.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00943 (Fisher's exact test), Q value = 0.011

Table S260.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 26(11Q13.2) MUTATED 3 4 0 0 0
AMP PEAK 26(11Q13.2) WILD-TYPE 11 5 7 7 16

Figure S260.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_11q13.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S261.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 26(11Q13.2) MUTATED 65 4 3 2
AMP PEAK 26(11Q13.2) WILD-TYPE 143 174 96 52

Figure S261.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q13.2' versus 'METHLYATION_CNMF'

P value = 0.00016 (Fisher's exact test), Q value = 0.00023

Table S262.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 26(11Q13.2) MUTATED 37 11 15
AMP PEAK 26(11Q13.2) WILD-TYPE 117 67 178

Figure S262.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q13.2' versus 'RPPA_CNMF'

P value = 0.00198 (Fisher's exact test), Q value = 0.0026

Table S263.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 26(11Q13.2) MUTATED 2 4 8 15 18 7 9
AMP PEAK 26(11Q13.2) WILD-TYPE 37 77 44 41 66 61 44

Figure S263.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_11q13.2' versus 'RPPA_CHIERARCHICAL'

P value = 7e-04 (Fisher's exact test), Q value = 0.00094

Table S264.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 26(11Q13.2) MUTATED 5 39 13 6
AMP PEAK 26(11Q13.2) WILD-TYPE 103 143 80 44

Figure S264.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_11q13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S265.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 26(11Q13.2) MUTATED 51 7 3 12
AMP PEAK 26(11Q13.2) WILD-TYPE 137 116 90 121

Figure S265.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11q13.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S266.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 26(11Q13.2) MUTATED 39 1 2 2 16 10 3
AMP PEAK 26(11Q13.2) WILD-TYPE 84 52 45 63 92 56 72

Figure S266.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11q13.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S267.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 26(11Q13.2) MUTATED 44 3 5 15 5
AMP PEAK 26(11Q13.2) WILD-TYPE 120 77 101 118 42

Figure S267.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q13.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S268.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 26(11Q13.2) MUTATED 19 41 12
AMP PEAK 26(11Q13.2) WILD-TYPE 199 131 128

Figure S268.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00437 (Fisher's exact test), Q value = 0.0055

Table S269.  Gene #26: 'amp_11q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 26(11Q13.2) MUTATED 36 13 10
AMP PEAK 26(11Q13.2) WILD-TYPE 127 119 93

Figure S269.  Get High-res Image Gene #26: 'amp_11q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11q14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S270.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 27(11Q14.1) MUTATED 54 2 2 2
AMP PEAK 27(11Q14.1) WILD-TYPE 154 176 97 52

Figure S270.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q14.1' versus 'METHLYATION_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S271.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 27(11Q14.1) MUTATED 32 9 10
AMP PEAK 27(11Q14.1) WILD-TYPE 122 69 183

Figure S271.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q14.1' versus 'RPPA_CNMF'

P value = 0.0253 (Fisher's exact test), Q value = 0.029

Table S272.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 27(11Q14.1) MUTATED 1 4 6 10 16 6 7
AMP PEAK 27(11Q14.1) WILD-TYPE 38 77 46 46 68 62 46

Figure S272.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_11q14.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.00224 (Fisher's exact test), Q value = 0.0029

Table S273.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 27(11Q14.1) MUTATED 4 32 10 4
AMP PEAK 27(11Q14.1) WILD-TYPE 104 150 83 46

Figure S273.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_11q14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S274.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 27(11Q14.1) MUTATED 41 6 4 8
AMP PEAK 27(11Q14.1) WILD-TYPE 147 117 89 125

Figure S274.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11q14.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S275.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 27(11Q14.1) MUTATED 34 1 4 2 9 7 2
AMP PEAK 27(11Q14.1) WILD-TYPE 89 52 43 63 99 59 73

Figure S275.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11q14.1' versus 'MIRSEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S276.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 27(11Q14.1) MUTATED 35 3 4 12 6
AMP PEAK 27(11Q14.1) WILD-TYPE 129 77 102 121 41

Figure S276.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S277.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 27(11Q14.1) MUTATED 13 38 9
AMP PEAK 27(11Q14.1) WILD-TYPE 205 134 131

Figure S277.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q14.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0289 (Fisher's exact test), Q value = 0.033

Table S278.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 27(11Q14.1) MUTATED 23 7 8 11
AMP PEAK 27(11Q14.1) WILD-TYPE 93 91 84 81

Figure S278.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_11q14.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0263 (Fisher's exact test), Q value = 0.03

Table S279.  Gene #27: 'amp_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 27(11Q14.1) MUTATED 28 9 12
AMP PEAK 27(11Q14.1) WILD-TYPE 135 123 91

Figure S279.  Get High-res Image Gene #27: 'amp_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12p12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S280.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 28(12P12.1) MUTATED 72 5 7 8
AMP PEAK 28(12P12.1) WILD-TYPE 136 173 92 46

Figure S280.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_12p12.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S281.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 28(12P12.1) MUTATED 48 17 11
AMP PEAK 28(12P12.1) WILD-TYPE 106 61 182

Figure S281.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12p12.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.00097 (Fisher's exact test), Q value = 0.0013

Table S282.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 28(12P12.1) MUTATED 12 48 11 5
AMP PEAK 28(12P12.1) WILD-TYPE 96 134 82 45

Figure S282.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_12p12.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S283.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 28(12P12.1) MUTATED 61 9 12 10
AMP PEAK 28(12P12.1) WILD-TYPE 127 114 81 123

Figure S283.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_12p12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S284.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 28(12P12.1) MUTATED 48 2 11 6 13 3 9
AMP PEAK 28(12P12.1) WILD-TYPE 75 51 36 59 95 63 66

Figure S284.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_12p12.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S285.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 28(12P12.1) MUTATED 51 7 13 10 11
AMP PEAK 28(12P12.1) WILD-TYPE 113 73 93 123 36

Figure S285.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_12p12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S286.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 28(12P12.1) MUTATED 23 57 12
AMP PEAK 28(12P12.1) WILD-TYPE 195 115 128

Figure S286.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12p12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 7e-04 (Fisher's exact test), Q value = 0.00094

Table S287.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 28(12P12.1) MUTATED 34 8 13 18
AMP PEAK 28(12P12.1) WILD-TYPE 82 90 79 74

Figure S287.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12p12.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S288.  Gene #28: 'amp_12p12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 28(12P12.1) MUTATED 45 10 18
AMP PEAK 28(12P12.1) WILD-TYPE 118 122 85

Figure S288.  Get High-res Image Gene #28: 'amp_12p12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12q13.11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S289.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 29(12Q13.11) MUTATED 71 4 5 7
AMP PEAK 29(12Q13.11) WILD-TYPE 137 174 94 47

Figure S289.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #3: 'CN_CNMF'

'amp_12q13.11' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S290.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 29(12Q13.11) MUTATED 43 20 8
AMP PEAK 29(12Q13.11) WILD-TYPE 111 58 185

Figure S290.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12q13.11' versus 'RPPA_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S291.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 29(12Q13.11) MUTATED 1 6 5 13 27 12 8
AMP PEAK 29(12Q13.11) WILD-TYPE 38 75 47 43 57 56 45

Figure S291.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_12q13.11' versus 'RPPA_CHIERARCHICAL'

P value = 0.00062 (Fisher's exact test), Q value = 0.00084

Table S292.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 29(12Q13.11) MUTATED 9 46 12 5
AMP PEAK 29(12Q13.11) WILD-TYPE 99 136 81 45

Figure S292.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_12q13.11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S293.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 29(12Q13.11) MUTATED 57 7 13 9
AMP PEAK 29(12Q13.11) WILD-TYPE 131 116 80 124

Figure S293.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_12q13.11' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S294.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 29(12Q13.11) MUTATED 45 1 12 6 11 4 7
AMP PEAK 29(12Q13.11) WILD-TYPE 78 52 35 59 97 62 68

Figure S294.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_12q13.11' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S295.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 29(12Q13.11) MUTATED 51 7 13 9 7
AMP PEAK 29(12Q13.11) WILD-TYPE 113 73 93 124 40

Figure S295.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_12q13.11' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S296.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 29(12Q13.11) MUTATED 19 57 11
AMP PEAK 29(12Q13.11) WILD-TYPE 199 115 129

Figure S296.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12q13.11' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00249 (Fisher's exact test), Q value = 0.0032

Table S297.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 29(12Q13.11) MUTATED 30 7 13 16
AMP PEAK 29(12Q13.11) WILD-TYPE 86 91 79 76

Figure S297.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12q13.11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00011

Table S298.  Gene #29: 'amp_12q13.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 29(12Q13.11) MUTATED 41 9 16
AMP PEAK 29(12Q13.11) WILD-TYPE 122 123 87

Figure S298.  Get High-res Image Gene #29: 'amp_12q13.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12q13.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S299.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 30(12Q13.2) MUTATED 83 4 6 7
AMP PEAK 30(12Q13.2) WILD-TYPE 125 174 93 47

Figure S299.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_12q13.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S300.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 30(12Q13.2) MUTATED 48 20 14
AMP PEAK 30(12Q13.2) WILD-TYPE 106 58 179

Figure S300.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12q13.2' versus 'RPPA_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.00016

Table S301.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 30(12Q13.2) MUTATED 1 8 6 17 26 12 8
AMP PEAK 30(12Q13.2) WILD-TYPE 38 73 46 39 58 56 45

Figure S301.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_12q13.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00055 (Fisher's exact test), Q value = 0.00075

Table S302.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 30(12Q13.2) MUTATED 10 49 14 5
AMP PEAK 30(12Q13.2) WILD-TYPE 98 133 79 45

Figure S302.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_12q13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S303.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 30(12Q13.2) MUTATED 61 8 17 13
AMP PEAK 30(12Q13.2) WILD-TYPE 127 115 76 120

Figure S303.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_12q13.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S304.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 30(12Q13.2) MUTATED 46 1 16 6 15 7 8
AMP PEAK 30(12Q13.2) WILD-TYPE 77 52 31 59 93 59 67

Figure S304.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_12q13.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S305.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 30(12Q13.2) MUTATED 57 6 15 12 8
AMP PEAK 30(12Q13.2) WILD-TYPE 107 74 91 121 39

Figure S305.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_12q13.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S306.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 30(12Q13.2) MUTATED 20 63 15
AMP PEAK 30(12Q13.2) WILD-TYPE 198 109 125

Figure S306.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12q13.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-04 (Fisher's exact test), Q value = 0.00029

Table S307.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 30(12Q13.2) MUTATED 37 10 11 20
AMP PEAK 30(12Q13.2) WILD-TYPE 79 88 81 72

Figure S307.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12q13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00021 (Fisher's exact test), Q value = 3e-04

Table S308.  Gene #30: 'amp_12q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 30(12Q13.2) MUTATED 47 13 18
AMP PEAK 30(12Q13.2) WILD-TYPE 116 119 85

Figure S308.  Get High-res Image Gene #30: 'amp_12q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_13q34' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S309.  Gene #31: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 31(13Q34) MUTATED 53 1 2 2
AMP PEAK 31(13Q34) WILD-TYPE 155 177 97 52

Figure S309.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

'amp_13q34' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S310.  Gene #31: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 31(13Q34) MUTATED 34 14 5
AMP PEAK 31(13Q34) WILD-TYPE 120 64 188

Figure S310.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_13q34' versus 'RPPA_CNMF'

P value = 0.00062 (Fisher's exact test), Q value = 0.00084

Table S311.  Gene #31: 'amp_13q34' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 31(13Q34) MUTATED 0 2 4 8 18 7 6
AMP PEAK 31(13Q34) WILD-TYPE 39 79 48 48 66 61 47

Figure S311.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_13q34' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S312.  Gene #31: 'amp_13q34' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 31(13Q34) MUTATED 1 32 9 3
AMP PEAK 31(13Q34) WILD-TYPE 107 150 84 47

Figure S312.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_13q34' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S313.  Gene #31: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 31(13Q34) MUTATED 50 0 5 3
AMP PEAK 31(13Q34) WILD-TYPE 138 123 88 130

Figure S313.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_13q34' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S314.  Gene #31: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 31(13Q34) MUTATED 46 0 5 2 3 1 1
AMP PEAK 31(13Q34) WILD-TYPE 77 53 42 63 105 65 74

Figure S314.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S315.  Gene #31: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 31(13Q34) MUTATED 42 2 6 3 5
AMP PEAK 31(13Q34) WILD-TYPE 122 78 100 130 42

Figure S315.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_13q34' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S316.  Gene #31: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 31(13Q34) MUTATED 8 46 4
AMP PEAK 31(13Q34) WILD-TYPE 210 126 136

Figure S316.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00019 (Fisher's exact test), Q value = 0.00027

Table S317.  Gene #31: 'amp_13q34' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 31(13Q34) MUTATED 24 2 12 14
AMP PEAK 31(13Q34) WILD-TYPE 92 96 80 78

Figure S317.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_13q34' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S318.  Gene #31: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 31(13Q34) MUTATED 31 4 17
AMP PEAK 31(13Q34) WILD-TYPE 132 128 86

Figure S318.  Get High-res Image Gene #31: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_14q24.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.01 (Fisher's exact test), Q value = 0.012

Table S319.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 32(14Q24.3) MUTATED 1 5 0 1 1
AMP PEAK 32(14Q24.3) WILD-TYPE 13 4 7 6 15

Figure S319.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_14q24.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S320.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 32(14Q24.3) MUTATED 56 1 2 5
AMP PEAK 32(14Q24.3) WILD-TYPE 152 177 97 49

Figure S320.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_14q24.3' versus 'METHLYATION_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S321.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 32(14Q24.3) MUTATED 32 12 10
AMP PEAK 32(14Q24.3) WILD-TYPE 122 66 183

Figure S321.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_14q24.3' versus 'RPPA_CNMF'

P value = 0.00173 (Fisher's exact test), Q value = 0.0023

Table S322.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 32(14Q24.3) MUTATED 3 4 1 9 13 4 12
AMP PEAK 32(14Q24.3) WILD-TYPE 36 77 51 47 71 64 41

Figure S322.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_14q24.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0116 (Fisher's exact test), Q value = 0.014

Table S323.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 32(14Q24.3) MUTATED 4 28 8 6
AMP PEAK 32(14Q24.3) WILD-TYPE 104 154 85 44

Figure S323.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_14q24.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S324.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 32(14Q24.3) MUTATED 52 4 1 7
AMP PEAK 32(14Q24.3) WILD-TYPE 136 119 92 126

Figure S324.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_14q24.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S325.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 32(14Q24.3) MUTATED 40 1 8 1 9 1 4
AMP PEAK 32(14Q24.3) WILD-TYPE 83 52 39 64 99 65 71

Figure S325.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_14q24.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S326.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 32(14Q24.3) MUTATED 38 5 3 9 7
AMP PEAK 32(14Q24.3) WILD-TYPE 126 75 103 124 40

Figure S326.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_14q24.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S327.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 32(14Q24.3) MUTATED 11 42 9
AMP PEAK 32(14Q24.3) WILD-TYPE 207 130 131

Figure S327.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_14q24.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0466 (Fisher's exact test), Q value = 0.052

Table S328.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 32(14Q24.3) MUTATED 23 7 10 13
AMP PEAK 32(14Q24.3) WILD-TYPE 93 91 82 79

Figure S328.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_14q24.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0154 (Fisher's exact test), Q value = 0.018

Table S329.  Gene #32: 'amp_14q24.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 32(14Q24.3) MUTATED 25 9 19
AMP PEAK 32(14Q24.3) WILD-TYPE 138 123 84

Figure S329.  Get High-res Image Gene #32: 'amp_14q24.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_14q32.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S330.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 33(14Q32.33) MUTATED 71 1 2 5
AMP PEAK 33(14Q32.33) WILD-TYPE 137 177 97 49

Figure S330.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #3: 'CN_CNMF'

'amp_14q32.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S331.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 33(14Q32.33) MUTATED 42 13 13
AMP PEAK 33(14Q32.33) WILD-TYPE 112 65 180

Figure S331.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_14q32.33' versus 'RPPA_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.00031

Table S332.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 33(14Q32.33) MUTATED 3 5 4 16 19 4 10
AMP PEAK 33(14Q32.33) WILD-TYPE 36 76 48 40 65 64 43

Figure S332.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_14q32.33' versus 'RPPA_CHIERARCHICAL'

P value = 0.00047 (Fisher's exact test), Q value = 0.00065

Table S333.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 33(14Q32.33) MUTATED 4 37 15 5
AMP PEAK 33(14Q32.33) WILD-TYPE 104 145 78 45

Figure S333.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_14q32.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S334.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 33(14Q32.33) MUTATED 58 5 3 12
AMP PEAK 33(14Q32.33) WILD-TYPE 130 118 90 121

Figure S334.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_14q32.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S335.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 33(14Q32.33) MUTATED 38 1 12 3 13 7 4
AMP PEAK 33(14Q32.33) WILD-TYPE 85 52 35 62 95 59 71

Figure S335.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_14q32.33' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S336.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 33(14Q32.33) MUTATED 47 7 6 13 5
AMP PEAK 33(14Q32.33) WILD-TYPE 117 73 100 120 42

Figure S336.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_14q32.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S337.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 33(14Q32.33) MUTATED 15 52 11
AMP PEAK 33(14Q32.33) WILD-TYPE 203 120 129

Figure S337.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_14q32.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00499 (Fisher's exact test), Q value = 0.0062

Table S338.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 33(14Q32.33) MUTATED 31 10 10 16
AMP PEAK 33(14Q32.33) WILD-TYPE 85 88 82 76

Figure S338.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_14q32.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0318 (Fisher's exact test), Q value = 0.036

Table S339.  Gene #33: 'amp_14q32.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 33(14Q32.33) MUTATED 36 14 17
AMP PEAK 33(14Q32.33) WILD-TYPE 127 118 86

Figure S339.  Get High-res Image Gene #33: 'amp_14q32.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_15q26.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S340.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 34(15Q26.3) MUTATED 35 2 0 1
AMP PEAK 34(15Q26.3) WILD-TYPE 173 176 99 53

Figure S340.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_15q26.3' versus 'METHLYATION_CNMF'

P value = 0.00394 (Fisher's exact test), Q value = 0.005

Table S341.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 34(15Q26.3) MUTATED 20 8 7
AMP PEAK 34(15Q26.3) WILD-TYPE 134 70 186

Figure S341.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_15q26.3' versus 'RPPA_CNMF'

P value = 0.0472 (Fisher's exact test), Q value = 0.053

Table S342.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 34(15Q26.3) MUTATED 0 1 2 5 8 5 6
AMP PEAK 34(15Q26.3) WILD-TYPE 39 80 50 51 76 63 47

Figure S342.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S343.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 34(15Q26.3) MUTATED 29 2 4 3
AMP PEAK 34(15Q26.3) WILD-TYPE 159 121 89 130

Figure S343.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S344.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 34(15Q26.3) MUTATED 20 1 6 1 8 2 0
AMP PEAK 34(15Q26.3) WILD-TYPE 103 52 41 64 100 64 75

Figure S344.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_15q26.3' versus 'MIRSEQ_CNMF'

P value = 9e-05 (Fisher's exact test), Q value = 0.00013

Table S345.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 34(15Q26.3) MUTATED 25 2 6 2 3
AMP PEAK 34(15Q26.3) WILD-TYPE 139 78 100 131 44

Figure S345.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_15q26.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S346.  Gene #34: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 34(15Q26.3) MUTATED 8 27 3
AMP PEAK 34(15Q26.3) WILD-TYPE 210 145 137

Figure S346.  Get High-res Image Gene #34: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_16p11.2' versus 'MRNA_CNMF'

P value = 0.0084 (Fisher's exact test), Q value = 0.01

Table S347.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 35(16P11.2) MUTATED 0 5 0 0
AMP PEAK 35(16P11.2) WILD-TYPE 15 12 14 7

Figure S347.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_16p11.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00513 (Fisher's exact test), Q value = 0.0064

Table S348.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 35(16P11.2) MUTATED 1 4 0 0 0
AMP PEAK 35(16P11.2) WILD-TYPE 13 5 7 7 16

Figure S348.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_16p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S349.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 35(16P11.2) MUTATED 62 0 1 3
AMP PEAK 35(16P11.2) WILD-TYPE 146 178 98 51

Figure S349.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_16p11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S350.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 35(16P11.2) MUTATED 34 15 8
AMP PEAK 35(16P11.2) WILD-TYPE 120 63 185

Figure S350.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_16p11.2' versus 'RPPA_CNMF'

P value = 0.00238 (Fisher's exact test), Q value = 0.0031

Table S351.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 35(16P11.2) MUTATED 1 2 7 10 16 10 9
AMP PEAK 35(16P11.2) WILD-TYPE 38 79 45 46 68 58 44

Figure S351.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_16p11.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00027 (Fisher's exact test), Q value = 0.00038

Table S352.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 35(16P11.2) MUTATED 3 35 12 5
AMP PEAK 35(16P11.2) WILD-TYPE 105 147 81 45

Figure S352.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_16p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S353.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 35(16P11.2) MUTATED 54 4 5 3
AMP PEAK 35(16P11.2) WILD-TYPE 134 119 88 130

Figure S353.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_16p11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S354.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 35(16P11.2) MUTATED 46 3 4 1 9 3 0
AMP PEAK 35(16P11.2) WILD-TYPE 77 50 43 64 99 63 75

Figure S354.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_16p11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S355.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 35(16P11.2) MUTATED 45 3 5 4 6
AMP PEAK 35(16P11.2) WILD-TYPE 119 77 101 129 41

Figure S355.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_16p11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S356.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 35(16P11.2) MUTATED 13 46 4
AMP PEAK 35(16P11.2) WILD-TYPE 205 126 136

Figure S356.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_16p11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00081 (Fisher's exact test), Q value = 0.0011

Table S357.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 35(16P11.2) MUTATED 26 4 10 12
AMP PEAK 35(16P11.2) WILD-TYPE 90 94 82 80

Figure S357.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_16p11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00303 (Fisher's exact test), Q value = 0.0039

Table S358.  Gene #35: 'amp_16p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 35(16P11.2) MUTATED 27 7 18
AMP PEAK 35(16P11.2) WILD-TYPE 136 125 85

Figure S358.  Get High-res Image Gene #35: 'amp_16p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S359.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 36(17Q11.2) MUTATED 64 3 1 3
AMP PEAK 36(17Q11.2) WILD-TYPE 144 175 98 51

Figure S359.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S360.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 36(17Q11.2) MUTATED 46 13 4
AMP PEAK 36(17Q11.2) WILD-TYPE 108 65 189

Figure S360.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q11.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S361.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 36(17Q11.2) MUTATED 2 0 2 15 22 10 5
AMP PEAK 36(17Q11.2) WILD-TYPE 37 81 50 41 62 58 48

Figure S361.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_17q11.2' versus 'RPPA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S362.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 36(17Q11.2) MUTATED 3 36 15 2
AMP PEAK 36(17Q11.2) WILD-TYPE 105 146 78 48

Figure S362.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_17q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S363.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 36(17Q11.2) MUTATED 61 1 5 3
AMP PEAK 36(17Q11.2) WILD-TYPE 127 122 88 130

Figure S363.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S364.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 36(17Q11.2) MUTATED 50 0 9 2 6 3 0
AMP PEAK 36(17Q11.2) WILD-TYPE 73 53 38 63 102 63 75

Figure S364.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S365.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 36(17Q11.2) MUTATED 55 2 6 2 3
AMP PEAK 36(17Q11.2) WILD-TYPE 109 78 100 131 44

Figure S365.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S366.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 36(17Q11.2) MUTATED 12 54 2
AMP PEAK 36(17Q11.2) WILD-TYPE 206 118 138

Figure S366.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S367.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 36(17Q11.2) MUTATED 31 5 11 11
AMP PEAK 36(17Q11.2) WILD-TYPE 85 93 81 81

Figure S367.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_17q11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S368.  Gene #36: 'amp_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 36(17Q11.2) MUTATED 39 5 14
AMP PEAK 36(17Q11.2) WILD-TYPE 124 127 89

Figure S368.  Get High-res Image Gene #36: 'amp_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q12' versus 'MRNA_CHIERARCHICAL'

P value = 0.00225 (Fisher's exact test), Q value = 0.0029

Table S369.  Gene #37: 'amp_17q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 37(17Q12) MUTATED 0 4 1 0 0
AMP PEAK 37(17Q12) WILD-TYPE 14 5 6 7 16

Figure S369.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_17q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S370.  Gene #37: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 37(17Q12) MUTATED 67 4 3 1
AMP PEAK 37(17Q12) WILD-TYPE 141 174 96 53

Figure S370.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S371.  Gene #37: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 37(17Q12) MUTATED 47 14 2
AMP PEAK 37(17Q12) WILD-TYPE 107 64 191

Figure S371.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q12' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S372.  Gene #37: 'amp_17q12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 37(17Q12) MUTATED 1 2 1 10 28 9 9
AMP PEAK 37(17Q12) WILD-TYPE 38 79 51 46 56 59 44

Figure S372.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_17q12' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S373.  Gene #37: 'amp_17q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 37(17Q12) MUTATED 4 43 7 6
AMP PEAK 37(17Q12) WILD-TYPE 104 139 86 44

Figure S373.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_17q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S374.  Gene #37: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 37(17Q12) MUTATED 61 1 11 2
AMP PEAK 37(17Q12) WILD-TYPE 127 122 82 131

Figure S374.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S375.  Gene #37: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 37(17Q12) MUTATED 51 0 15 2 5 2 0
AMP PEAK 37(17Q12) WILD-TYPE 72 53 32 63 103 64 75

Figure S375.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S376.  Gene #37: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 37(17Q12) MUTATED 58 1 9 3 2
AMP PEAK 37(17Q12) WILD-TYPE 106 79 97 130 45

Figure S376.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S377.  Gene #37: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 37(17Q12) MUTATED 7 63 3
AMP PEAK 37(17Q12) WILD-TYPE 211 109 137

Figure S377.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.00034

Table S378.  Gene #37: 'amp_17q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 37(17Q12) MUTATED 30 5 11 14
AMP PEAK 37(17Q12) WILD-TYPE 86 93 81 78

Figure S378.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_17q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S379.  Gene #37: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 37(17Q12) MUTATED 38 4 18
AMP PEAK 37(17Q12) WILD-TYPE 125 128 85

Figure S379.  Get High-res Image Gene #37: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q25.1' versus 'MRNA_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S380.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 38(17Q25.1) MUTATED 0 10 1 0
AMP PEAK 38(17Q25.1) WILD-TYPE 15 7 13 7

Figure S380.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_17q25.1' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S381.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 38(17Q25.1) MUTATED 2 8 1 0 0
AMP PEAK 38(17Q25.1) WILD-TYPE 12 1 6 7 16

Figure S381.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_17q25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S382.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 38(17Q25.1) MUTATED 95 4 3 3
AMP PEAK 38(17Q25.1) WILD-TYPE 113 174 96 51

Figure S382.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q25.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S383.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 38(17Q25.1) MUTATED 54 23 8
AMP PEAK 38(17Q25.1) WILD-TYPE 100 55 185

Figure S383.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q25.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S384.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 38(17Q25.1) MUTATED 3 1 5 14 38 11 13
AMP PEAK 38(17Q25.1) WILD-TYPE 36 80 47 42 46 57 40

Figure S384.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_17q25.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S385.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 38(17Q25.1) MUTATED 4 56 18 7
AMP PEAK 38(17Q25.1) WILD-TYPE 104 126 75 43

Figure S385.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_17q25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S386.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 38(17Q25.1) MUTATED 81 5 11 7
AMP PEAK 38(17Q25.1) WILD-TYPE 107 118 82 126

Figure S386.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q25.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S387.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 38(17Q25.1) MUTATED 72 0 13 2 9 7 1
AMP PEAK 38(17Q25.1) WILD-TYPE 51 53 34 63 99 59 74

Figure S387.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q25.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S388.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 38(17Q25.1) MUTATED 77 5 9 7 3
AMP PEAK 38(17Q25.1) WILD-TYPE 87 75 97 126 44

Figure S388.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q25.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S389.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 38(17Q25.1) MUTATED 18 77 6
AMP PEAK 38(17Q25.1) WILD-TYPE 200 95 134

Figure S389.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S390.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 38(17Q25.1) MUTATED 42 7 19 13
AMP PEAK 38(17Q25.1) WILD-TYPE 74 91 73 79

Figure S390.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_17q25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S391.  Gene #38: 'amp_17q25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 38(17Q25.1) MUTATED 43 10 28
AMP PEAK 38(17Q25.1) WILD-TYPE 120 122 75

Figure S391.  Get High-res Image Gene #38: 'amp_17q25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_18p11.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S392.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 39(18P11.31) MUTATED 90 1 3 2
AMP PEAK 39(18P11.31) WILD-TYPE 118 177 96 52

Figure S392.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #3: 'CN_CNMF'

'amp_18p11.31' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S393.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 39(18P11.31) MUTATED 55 22 8
AMP PEAK 39(18P11.31) WILD-TYPE 99 56 185

Figure S393.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_18p11.31' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S394.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 39(18P11.31) MUTATED 1 1 5 20 25 13 10
AMP PEAK 39(18P11.31) WILD-TYPE 38 80 47 36 59 55 43

Figure S394.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_18p11.31' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S395.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 39(18P11.31) MUTATED 4 50 15 6
AMP PEAK 39(18P11.31) WILD-TYPE 104 132 78 44

Figure S395.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_18p11.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S396.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 39(18P11.31) MUTATED 77 2 9 8
AMP PEAK 39(18P11.31) WILD-TYPE 111 121 84 125

Figure S396.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_18p11.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S397.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 39(18P11.31) MUTATED 61 1 17 1 9 4 3
AMP PEAK 39(18P11.31) WILD-TYPE 62 52 30 64 99 62 72

Figure S397.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_18p11.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S398.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 39(18P11.31) MUTATED 69 5 6 6 9
AMP PEAK 39(18P11.31) WILD-TYPE 95 75 100 127 38

Figure S398.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_18p11.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S399.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 39(18P11.31) MUTATED 15 74 6
AMP PEAK 39(18P11.31) WILD-TYPE 203 98 134

Figure S399.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_18p11.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S400.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 39(18P11.31) MUTATED 38 7 22 15
AMP PEAK 39(18P11.31) WILD-TYPE 78 91 70 77

Figure S400.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_18p11.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S401.  Gene #39: 'amp_18p11.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 39(18P11.31) MUTATED 45 8 29
AMP PEAK 39(18P11.31) WILD-TYPE 118 124 74

Figure S401.  Get High-res Image Gene #39: 'amp_18p11.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_18q11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S402.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 40(18Q11.2) MUTATED 63 1 2 3
AMP PEAK 40(18Q11.2) WILD-TYPE 145 177 97 51

Figure S402.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_18q11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S403.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 40(18Q11.2) MUTATED 39 18 4
AMP PEAK 40(18Q11.2) WILD-TYPE 115 60 189

Figure S403.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_18q11.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S404.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 40(18Q11.2) MUTATED 1 1 3 15 20 10 6
AMP PEAK 40(18Q11.2) WILD-TYPE 38 80 49 41 64 58 47

Figure S404.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_18q11.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S405.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 40(18Q11.2) MUTATED 1 39 13 3
AMP PEAK 40(18Q11.2) WILD-TYPE 107 143 80 47

Figure S405.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_18q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S406.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 40(18Q11.2) MUTATED 59 2 5 3
AMP PEAK 40(18Q11.2) WILD-TYPE 129 121 88 130

Figure S406.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_18q11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S407.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 40(18Q11.2) MUTATED 49 1 9 1 6 2 1
AMP PEAK 40(18Q11.2) WILD-TYPE 74 52 38 64 102 64 74

Figure S407.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_18q11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S408.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 40(18Q11.2) MUTATED 53 5 4 1 5
AMP PEAK 40(18Q11.2) WILD-TYPE 111 75 102 132 42

Figure S408.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_18q11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S409.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 40(18Q11.2) MUTATED 13 54 1
AMP PEAK 40(18Q11.2) WILD-TYPE 205 118 139

Figure S409.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_18q11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S410.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 40(18Q11.2) MUTATED 31 2 12 12
AMP PEAK 40(18Q11.2) WILD-TYPE 85 96 80 80

Figure S410.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_18q11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S411.  Gene #40: 'amp_18q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 40(18Q11.2) MUTATED 37 1 19
AMP PEAK 40(18Q11.2) WILD-TYPE 126 131 84

Figure S411.  Get High-res Image Gene #40: 'amp_18q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19p13.2' versus 'MRNA_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S412.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 41(19P13.2) MUTATED 0 9 0 0
AMP PEAK 41(19P13.2) WILD-TYPE 15 8 14 7

Figure S412.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19p13.2' versus 'MRNA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S413.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 41(19P13.2) MUTATED 2 7 0 0 0
AMP PEAK 41(19P13.2) WILD-TYPE 12 2 7 7 16

Figure S413.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19p13.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S414.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 41(19P13.2) MUTATED 89 0 1 2
AMP PEAK 41(19P13.2) WILD-TYPE 119 178 98 52

Figure S414.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19p13.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S415.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 41(19P13.2) MUTATED 44 28 9
AMP PEAK 41(19P13.2) WILD-TYPE 110 50 184

Figure S415.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19p13.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S416.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 41(19P13.2) MUTATED 1 3 4 16 26 10 10
AMP PEAK 41(19P13.2) WILD-TYPE 38 78 48 40 58 58 43

Figure S416.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19p13.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S417.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 41(19P13.2) MUTATED 3 52 9 6
AMP PEAK 41(19P13.2) WILD-TYPE 105 130 84 44

Figure S417.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_19p13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S418.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 41(19P13.2) MUTATED 78 3 3 7
AMP PEAK 41(19P13.2) WILD-TYPE 110 120 90 126

Figure S418.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19p13.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S419.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 41(19P13.2) MUTATED 68 1 4 2 9 6 1
AMP PEAK 41(19P13.2) WILD-TYPE 55 52 43 63 99 60 74

Figure S419.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19p13.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S420.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 41(19P13.2) MUTATED 67 4 4 8 6
AMP PEAK 41(19P13.2) WILD-TYPE 97 76 102 125 41

Figure S420.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19p13.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S421.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 41(19P13.2) MUTATED 19 62 8
AMP PEAK 41(19P13.2) WILD-TYPE 199 110 132

Figure S421.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19p13.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S422.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 41(19P13.2) MUTATED 40 7 17 11
AMP PEAK 41(19P13.2) WILD-TYPE 76 91 75 81

Figure S422.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19p13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00664 (Fisher's exact test), Q value = 0.0082

Table S423.  Gene #41: 'amp_19p13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 41(19P13.2) MUTATED 40 14 21
AMP PEAK 41(19P13.2) WILD-TYPE 123 118 82

Figure S423.  Get High-res Image Gene #41: 'amp_19p13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19p13.12' versus 'MRNA_CNMF'

P value = 0.00358 (Fisher's exact test), Q value = 0.0045

Table S424.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 42(19P13.12) MUTATED 1 7 0 0
AMP PEAK 42(19P13.12) WILD-TYPE 14 10 14 7

Figure S424.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19p13.12' versus 'MRNA_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.00025

Table S425.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 42(19P13.12) MUTATED 2 6 0 0 0
AMP PEAK 42(19P13.12) WILD-TYPE 12 3 7 7 16

Figure S425.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19p13.12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S426.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 42(19P13.12) MUTATED 96 0 2 1
AMP PEAK 42(19P13.12) WILD-TYPE 112 178 97 53

Figure S426.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19p13.12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S427.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 42(19P13.12) MUTATED 50 27 9
AMP PEAK 42(19P13.12) WILD-TYPE 104 51 184

Figure S427.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19p13.12' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S428.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 42(19P13.12) MUTATED 1 3 7 18 25 10 11
AMP PEAK 42(19P13.12) WILD-TYPE 38 78 45 38 59 58 42

Figure S428.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19p13.12' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S429.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 42(19P13.12) MUTATED 3 55 11 6
AMP PEAK 42(19P13.12) WILD-TYPE 105 127 82 44

Figure S429.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_19p13.12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S430.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 42(19P13.12) MUTATED 85 5 3 5
AMP PEAK 42(19P13.12) WILD-TYPE 103 118 90 128

Figure S430.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19p13.12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S431.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 42(19P13.12) MUTATED 74 2 5 3 9 4 1
AMP PEAK 42(19P13.12) WILD-TYPE 49 51 42 62 99 62 74

Figure S431.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19p13.12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S432.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 42(19P13.12) MUTATED 73 5 6 7 6
AMP PEAK 42(19P13.12) WILD-TYPE 91 75 100 126 41

Figure S432.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19p13.12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S433.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 42(19P13.12) MUTATED 21 69 7
AMP PEAK 42(19P13.12) WILD-TYPE 197 103 133

Figure S433.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19p13.12' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S434.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 42(19P13.12) MUTATED 45 6 19 11
AMP PEAK 42(19P13.12) WILD-TYPE 71 92 73 81

Figure S434.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19p13.12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00011

Table S435.  Gene #42: 'amp_19p13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 42(19P13.12) MUTATED 45 11 25
AMP PEAK 42(19P13.12) WILD-TYPE 118 121 78

Figure S435.  Get High-res Image Gene #42: 'amp_19p13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q12' versus 'MRNA_CNMF'

P value = 0.00666 (Fisher's exact test), Q value = 0.0082

Table S436.  Gene #43: 'amp_19q12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 43(19Q12) MUTATED 1 8 1 0
AMP PEAK 43(19Q12) WILD-TYPE 14 9 13 7

Figure S436.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19q12' versus 'MRNA_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00011

Table S437.  Gene #43: 'amp_19q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 43(19Q12) MUTATED 2 7 1 0 0
AMP PEAK 43(19Q12) WILD-TYPE 12 2 6 7 16

Figure S437.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S438.  Gene #43: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 43(19Q12) MUTATED 118 0 2 1
AMP PEAK 43(19Q12) WILD-TYPE 90 178 97 53

Figure S438.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S439.  Gene #43: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 43(19Q12) MUTATED 68 28 11
AMP PEAK 43(19Q12) WILD-TYPE 86 50 182

Figure S439.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19q12' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S440.  Gene #43: 'amp_19q12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 43(19Q12) MUTATED 1 3 6 18 34 17 13
AMP PEAK 43(19Q12) WILD-TYPE 38 78 46 38 50 51 40

Figure S440.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19q12' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S441.  Gene #43: 'amp_19q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 43(19Q12) MUTATED 3 63 19 7
AMP PEAK 43(19Q12) WILD-TYPE 105 119 74 43

Figure S441.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_19q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S442.  Gene #43: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 43(19Q12) MUTATED 100 3 11 7
AMP PEAK 43(19Q12) WILD-TYPE 88 120 82 126

Figure S442.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S443.  Gene #43: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 43(19Q12) MUTATED 81 1 19 3 11 5 1
AMP PEAK 43(19Q12) WILD-TYPE 42 52 28 62 97 61 74

Figure S443.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S444.  Gene #43: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 43(19Q12) MUTATED 87 4 10 7 9
AMP PEAK 43(19Q12) WILD-TYPE 77 76 96 126 38

Figure S444.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S445.  Gene #43: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 43(19Q12) MUTATED 22 88 7
AMP PEAK 43(19Q12) WILD-TYPE 196 84 133

Figure S445.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S446.  Gene #43: 'amp_19q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 43(19Q12) MUTATED 50 7 24 20
AMP PEAK 43(19Q12) WILD-TYPE 66 91 68 72

Figure S446.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S447.  Gene #43: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 43(19Q12) MUTATED 56 14 31
AMP PEAK 43(19Q12) WILD-TYPE 107 118 72

Figure S447.  Get High-res Image Gene #43: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20p13' versus 'MRNA_CHIERARCHICAL'

P value = 0.05 (Fisher's exact test), Q value = 0.056

Table S448.  Gene #44: 'amp_20p13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 44(20P13) MUTATED 2 3 0 0 0
AMP PEAK 44(20P13) WILD-TYPE 12 6 7 7 16

Figure S448.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_20p13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S449.  Gene #44: 'amp_20p13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 44(20P13) MUTATED 104 4 3 6
AMP PEAK 44(20P13) WILD-TYPE 104 174 96 48

Figure S449.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20p13' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S450.  Gene #44: 'amp_20p13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 44(20P13) MUTATED 65 24 18
AMP PEAK 44(20P13) WILD-TYPE 89 54 175

Figure S450.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20p13' versus 'RPPA_CNMF'

P value = 9e-05 (Fisher's exact test), Q value = 0.00013

Table S451.  Gene #44: 'amp_20p13' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 44(20P13) MUTATED 2 9 5 16 29 16 11
AMP PEAK 44(20P13) WILD-TYPE 37 72 47 40 55 52 42

Figure S451.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20p13' versus 'RPPA_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S452.  Gene #44: 'amp_20p13' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 44(20P13) MUTATED 8 54 17 9
AMP PEAK 44(20P13) WILD-TYPE 100 128 76 41

Figure S452.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_20p13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S453.  Gene #44: 'amp_20p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 44(20P13) MUTATED 80 10 12 14
AMP PEAK 44(20P13) WILD-TYPE 108 113 81 119

Figure S453.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20p13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S454.  Gene #44: 'amp_20p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 44(20P13) MUTATED 64 5 16 3 12 14 2
AMP PEAK 44(20P13) WILD-TYPE 59 48 31 62 96 52 73

Figure S454.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20p13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S455.  Gene #44: 'amp_20p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 44(20P13) MUTATED 75 8 9 13 11
AMP PEAK 44(20P13) WILD-TYPE 89 72 97 120 36

Figure S455.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20p13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S456.  Gene #44: 'amp_20p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 44(20P13) MUTATED 30 74 12
AMP PEAK 44(20P13) WILD-TYPE 188 98 128

Figure S456.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20p13' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.003 (Fisher's exact test), Q value = 0.0038

Table S457.  Gene #44: 'amp_20p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 44(20P13) MUTATED 40 13 20 25
AMP PEAK 44(20P13) WILD-TYPE 76 85 72 67

Figure S457.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20p13' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S458.  Gene #44: 'amp_20p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 44(20P13) MUTATED 57 17 24
AMP PEAK 44(20P13) WILD-TYPE 106 115 79

Figure S458.  Get High-res Image Gene #44: 'amp_20p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q11.21' versus 'MRNA_CNMF'

P value = 0.00094 (Fisher's exact test), Q value = 0.0013

Table S459.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 45(20Q11.21) MUTATED 2 9 0 0
AMP PEAK 45(20Q11.21) WILD-TYPE 13 8 14 7

Figure S459.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_20q11.21' versus 'MRNA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S460.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 45(20Q11.21) MUTATED 4 7 0 0 0
AMP PEAK 45(20Q11.21) WILD-TYPE 10 2 7 7 16

Figure S460.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_20q11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S461.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 45(20Q11.21) MUTATED 139 3 3 7
AMP PEAK 45(20Q11.21) WILD-TYPE 69 175 96 47

Figure S461.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20q11.21' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S462.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 45(20Q11.21) MUTATED 79 27 27
AMP PEAK 45(20Q11.21) WILD-TYPE 75 51 166

Figure S462.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q11.21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S463.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 45(20Q11.21) MUTATED 1 8 7 29 38 19 15
AMP PEAK 45(20Q11.21) WILD-TYPE 38 73 45 27 46 49 38

Figure S463.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20q11.21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S464.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 45(20Q11.21) MUTATED 9 76 23 9
AMP PEAK 45(20Q11.21) WILD-TYPE 99 106 70 41

Figure S464.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_20q11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S465.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 45(20Q11.21) MUTATED 105 9 17 20
AMP PEAK 45(20Q11.21) WILD-TYPE 83 114 76 113

Figure S465.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20q11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S466.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 45(20Q11.21) MUTATED 80 4 21 4 21 17 4
AMP PEAK 45(20Q11.21) WILD-TYPE 43 49 26 61 87 49 71

Figure S466.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20q11.21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S467.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 45(20Q11.21) MUTATED 95 8 15 19 11
AMP PEAK 45(20Q11.21) WILD-TYPE 69 72 91 114 36

Figure S467.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20q11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S468.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 45(20Q11.21) MUTATED 32 96 20
AMP PEAK 45(20Q11.21) WILD-TYPE 186 76 120

Figure S468.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S469.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 45(20Q11.21) MUTATED 56 18 23 28
AMP PEAK 45(20Q11.21) WILD-TYPE 60 80 69 64

Figure S469.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20q11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S470.  Gene #45: 'amp_20q11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 45(20Q11.21) MUTATED 69 26 30
AMP PEAK 45(20Q11.21) WILD-TYPE 94 106 73

Figure S470.  Get High-res Image Gene #45: 'amp_20q11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q13.12' versus 'MRNA_CNMF'

P value = 0.0112 (Fisher's exact test), Q value = 0.013

Table S471.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 46(20Q13.12) MUTATED 1 6 0 0
AMP PEAK 46(20Q13.12) WILD-TYPE 14 11 14 7

Figure S471.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_20q13.12' versus 'MRNA_CHIERARCHICAL'

P value = 0.00939 (Fisher's exact test), Q value = 0.011

Table S472.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 46(20Q13.12) MUTATED 3 4 0 0 0
AMP PEAK 46(20Q13.12) WILD-TYPE 11 5 7 7 16

Figure S472.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_20q13.12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S473.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 46(20Q13.12) MUTATED 138 4 3 7
AMP PEAK 46(20Q13.12) WILD-TYPE 70 174 96 47

Figure S473.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20q13.12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S474.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 46(20Q13.12) MUTATED 83 28 27
AMP PEAK 46(20Q13.12) WILD-TYPE 71 50 166

Figure S474.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q13.12' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S475.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 46(20Q13.12) MUTATED 3 7 7 25 38 18 15
AMP PEAK 46(20Q13.12) WILD-TYPE 36 74 45 31 46 50 38

Figure S475.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20q13.12' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S476.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 46(20Q13.12) MUTATED 10 73 21 9
AMP PEAK 46(20Q13.12) WILD-TYPE 98 109 72 41

Figure S476.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_20q13.12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S477.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 46(20Q13.12) MUTATED 106 10 16 19
AMP PEAK 46(20Q13.12) WILD-TYPE 82 113 77 114

Figure S477.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20q13.12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S478.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 46(20Q13.12) MUTATED 82 4 21 4 21 15 4
AMP PEAK 46(20Q13.12) WILD-TYPE 41 49 26 61 87 51 71

Figure S478.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20q13.12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S479.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 46(20Q13.12) MUTATED 98 8 13 20 12
AMP PEAK 46(20Q13.12) WILD-TYPE 66 72 93 113 35

Figure S479.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20q13.12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S480.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 46(20Q13.12) MUTATED 35 97 19
AMP PEAK 46(20Q13.12) WILD-TYPE 183 75 121

Figure S480.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.12' versus 'MIRSEQ_MATURE_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S481.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 46(20Q13.12) MUTATED 54 18 25 32
AMP PEAK 46(20Q13.12) WILD-TYPE 62 80 67 60

Figure S481.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20q13.12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S482.  Gene #46: 'amp_20q13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 46(20Q13.12) MUTATED 75 24 30
AMP PEAK 46(20Q13.12) WILD-TYPE 88 108 73

Figure S482.  Get High-res Image Gene #46: 'amp_20q13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q13.33' versus 'MRNA_CNMF'

P value = 0.0111 (Fisher's exact test), Q value = 0.013

Table S483.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
AMP PEAK 47(20Q13.33) MUTATED 2 7 0 0
AMP PEAK 47(20Q13.33) WILD-TYPE 13 10 14 7

Figure S483.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_20q13.33' versus 'MRNA_CHIERARCHICAL'

P value = 0.0014 (Fisher's exact test), Q value = 0.0018

Table S484.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 47(20Q13.33) MUTATED 4 5 0 0 0
AMP PEAK 47(20Q13.33) WILD-TYPE 10 4 7 7 16

Figure S484.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_20q13.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S485.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 47(20Q13.33) MUTATED 140 4 3 6
AMP PEAK 47(20Q13.33) WILD-TYPE 68 174 96 48

Figure S485.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20q13.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S486.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 47(20Q13.33) MUTATED 82 27 27
AMP PEAK 47(20Q13.33) WILD-TYPE 72 51 166

Figure S486.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q13.33' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S487.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 47(20Q13.33) MUTATED 4 9 10 23 40 17 13
AMP PEAK 47(20Q13.33) WILD-TYPE 35 72 42 33 44 51 40

Figure S487.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20q13.33' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S488.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 47(20Q13.33) MUTATED 11 78 19 8
AMP PEAK 47(20Q13.33) WILD-TYPE 97 104 74 42

Figure S488.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_20q13.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S489.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 47(20Q13.33) MUTATED 104 13 17 19
AMP PEAK 47(20Q13.33) WILD-TYPE 84 110 76 114

Figure S489.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20q13.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S490.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 47(20Q13.33) MUTATED 78 4 24 5 22 16 4
AMP PEAK 47(20Q13.33) WILD-TYPE 45 49 23 60 86 50 71

Figure S490.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20q13.33' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S491.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 47(20Q13.33) MUTATED 97 9 13 20 11
AMP PEAK 47(20Q13.33) WILD-TYPE 67 71 93 113 36

Figure S491.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20q13.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S492.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 47(20Q13.33) MUTATED 37 94 19
AMP PEAK 47(20Q13.33) WILD-TYPE 181 78 121

Figure S492.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00023 (Fisher's exact test), Q value = 0.00033

Table S493.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 47(20Q13.33) MUTATED 53 17 25 32
AMP PEAK 47(20Q13.33) WILD-TYPE 63 81 67 60

Figure S493.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20q13.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S494.  Gene #47: 'amp_20q13.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 47(20Q13.33) MUTATED 72 23 32
AMP PEAK 47(20Q13.33) WILD-TYPE 91 109 71

Figure S494.  Get High-res Image Gene #47: 'amp_20q13.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_22q12.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S495.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 48(22Q12.2) MUTATED 57 0 2 3
AMP PEAK 48(22Q12.2) WILD-TYPE 151 178 97 51

Figure S495.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_22q12.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S496.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 48(22Q12.2) MUTATED 40 16 1
AMP PEAK 48(22Q12.2) WILD-TYPE 114 62 192

Figure S496.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_22q12.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S497.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
AMP PEAK 48(22Q12.2) MUTATED 0 0 2 12 24 6 8
AMP PEAK 48(22Q12.2) WILD-TYPE 39 81 50 44 60 62 45

Figure S497.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_22q12.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S498.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 48(22Q12.2) MUTATED 1 41 6 4
AMP PEAK 48(22Q12.2) WILD-TYPE 107 141 87 46

Figure S498.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_22q12.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S499.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 48(22Q12.2) MUTATED 54 1 6 0
AMP PEAK 48(22Q12.2) WILD-TYPE 134 122 87 133

Figure S499.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_22q12.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S500.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 48(22Q12.2) MUTATED 43 1 15 0 2 0 0
AMP PEAK 48(22Q12.2) WILD-TYPE 80 52 32 65 106 66 75

Figure S500.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_22q12.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S501.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 48(22Q12.2) MUTATED 47 1 9 0 4
AMP PEAK 48(22Q12.2) WILD-TYPE 117 79 97 133 43

Figure S501.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_22q12.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S502.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 48(22Q12.2) MUTATED 3 58 0
AMP PEAK 48(22Q12.2) WILD-TYPE 215 114 140

Figure S502.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_22q12.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S503.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 48(22Q12.2) MUTATED 29 1 6 20
AMP PEAK 48(22Q12.2) WILD-TYPE 87 97 86 72

Figure S503.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_22q12.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S504.  Gene #48: 'amp_22q12.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 48(22Q12.2) MUTATED 40 2 14
AMP PEAK 48(22Q12.2) WILD-TYPE 123 130 89

Figure S504.  Get High-res Image Gene #48: 'amp_22q12.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_xp11.23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S505.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 49(XP11.23) MUTATED 61 2 20 7
AMP PEAK 49(XP11.23) WILD-TYPE 147 176 79 47

Figure S505.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #3: 'CN_CNMF'

'amp_xp11.23' versus 'METHLYATION_CNMF'

P value = 0.0013 (Fisher's exact test), Q value = 0.0017

Table S506.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
AMP PEAK 49(XP11.23) MUTATED 32 20 19
AMP PEAK 49(XP11.23) WILD-TYPE 122 58 174

Figure S506.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_xp11.23' versus 'MRNASEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S507.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 49(XP11.23) MUTATED 52 14 9 15
AMP PEAK 49(XP11.23) WILD-TYPE 136 109 84 118

Figure S507.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_xp11.23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00045 (Fisher's exact test), Q value = 0.00063

Table S508.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 49(XP11.23) MUTATED 38 5 10 6 14 9 8
AMP PEAK 49(XP11.23) WILD-TYPE 85 48 37 59 94 57 67

Figure S508.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_xp11.23' versus 'MIRSEQ_CNMF'

P value = 0.00609 (Fisher's exact test), Q value = 0.0075

Table S509.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 49(XP11.23) MUTATED 43 11 12 16 7
AMP PEAK 49(XP11.23) WILD-TYPE 121 69 94 117 40

Figure S509.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_xp11.23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 5e-04 (Fisher's exact test), Q value = 0.00069

Table S510.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 49(XP11.23) MUTATED 28 45 16
AMP PEAK 49(XP11.23) WILD-TYPE 190 127 124

Figure S510.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_xp11.23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00236 (Fisher's exact test), Q value = 0.003

Table S511.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 49(XP11.23) MUTATED 33 10 12 13
AMP PEAK 49(XP11.23) WILD-TYPE 83 88 80 79

Figure S511.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_xp11.23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00787 (Fisher's exact test), Q value = 0.0096

Table S512.  Gene #49: 'amp_xp11.23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
AMP PEAK 49(XP11.23) MUTATED 35 12 21
AMP PEAK 49(XP11.23) WILD-TYPE 128 120 82

Figure S512.  Get High-res Image Gene #49: 'amp_xp11.23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_xq28' versus 'MRNA_CHIERARCHICAL'

P value = 0.0266 (Fisher's exact test), Q value = 0.031

Table S513.  Gene #50: 'amp_xq28' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
AMP PEAK 50(XQ28) MUTATED 1 5 1 1 1
AMP PEAK 50(XQ28) WILD-TYPE 13 4 6 6 15

Figure S513.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_xq28' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S514.  Gene #50: 'amp_xq28' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
AMP PEAK 50(XQ28) MUTATED 63 3 21 6
AMP PEAK 50(XQ28) WILD-TYPE 145 175 78 48

Figure S514.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #3: 'CN_CNMF'

'amp_xq28' versus 'RPPA_CHIERARCHICAL'

P value = 0.0388 (Fisher's exact test), Q value = 0.044

Table S515.  Gene #50: 'amp_xq28' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
AMP PEAK 50(XQ28) MUTATED 16 45 14 5
AMP PEAK 50(XQ28) WILD-TYPE 92 137 79 45

Figure S515.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_xq28' versus 'MRNASEQ_CNMF'

P value = 0.00866 (Fisher's exact test), Q value = 0.01

Table S516.  Gene #50: 'amp_xq28' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
AMP PEAK 50(XQ28) MUTATED 47 15 14 17
AMP PEAK 50(XQ28) WILD-TYPE 141 108 79 116

Figure S516.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_xq28' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00246 (Fisher's exact test), Q value = 0.0032

Table S517.  Gene #50: 'amp_xq28' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
AMP PEAK 50(XQ28) MUTATED 37 6 10 6 17 9 8
AMP PEAK 50(XQ28) WILD-TYPE 86 47 37 59 91 57 67

Figure S517.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_xq28' versus 'MIRSEQ_CNMF'

P value = 0.0114 (Fisher's exact test), Q value = 0.013

Table S518.  Gene #50: 'amp_xq28' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
AMP PEAK 50(XQ28) MUTATED 42 13 15 15 5
AMP PEAK 50(XQ28) WILD-TYPE 122 67 91 118 42

Figure S518.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_xq28' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0102 (Fisher's exact test), Q value = 0.012

Table S519.  Gene #50: 'amp_xq28' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
AMP PEAK 50(XQ28) MUTATED 33 41 16
AMP PEAK 50(XQ28) WILD-TYPE 185 131 124

Figure S519.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_xq28' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00047 (Fisher's exact test), Q value = 0.00065

Table S520.  Gene #50: 'amp_xq28' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
AMP PEAK 50(XQ28) MUTATED 35 13 14 8
AMP PEAK 50(XQ28) WILD-TYPE 81 85 78 84

Figure S520.  Get High-res Image Gene #50: 'amp_xq28' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_1p36.21' versus 'MRNA_CNMF'

P value = 0.0328 (Fisher's exact test), Q value = 0.037

Table S521.  Gene #51: 'del_1p36.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 1(1P36.21) MUTATED 2 6 0 0
DEL PEAK 1(1P36.21) WILD-TYPE 13 11 14 7

Figure S521.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_1p36.21' versus 'MRNA_CHIERARCHICAL'

P value = 0.0017 (Fisher's exact test), Q value = 0.0022

Table S522.  Gene #51: 'del_1p36.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 1(1P36.21) MUTATED 3 5 0 0 0
DEL PEAK 1(1P36.21) WILD-TYPE 11 4 7 7 16

Figure S522.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_1p36.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S523.  Gene #51: 'del_1p36.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 1(1P36.21) MUTATED 67 1 1 2
DEL PEAK 1(1P36.21) WILD-TYPE 141 177 98 52

Figure S523.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #3: 'CN_CNMF'

'del_1p36.21' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S524.  Gene #51: 'del_1p36.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 1(1P36.21) MUTATED 33 19 8
DEL PEAK 1(1P36.21) WILD-TYPE 121 59 185

Figure S524.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p36.21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S525.  Gene #51: 'del_1p36.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 1(1P36.21) MUTATED 1 0 3 11 19 9 10
DEL PEAK 1(1P36.21) WILD-TYPE 38 81 49 45 65 59 43

Figure S525.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_1p36.21' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S526.  Gene #51: 'del_1p36.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 1(1P36.21) MUTATED 1 35 9 8
DEL PEAK 1(1P36.21) WILD-TYPE 107 147 84 42

Figure S526.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_1p36.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S527.  Gene #51: 'del_1p36.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 1(1P36.21) MUTATED 53 6 9 3
DEL PEAK 1(1P36.21) WILD-TYPE 135 117 84 130

Figure S527.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_1p36.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S528.  Gene #51: 'del_1p36.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 1(1P36.21) MUTATED 42 1 9 4 12 3 0
DEL PEAK 1(1P36.21) WILD-TYPE 81 52 38 61 96 63 75

Figure S528.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_1p36.21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S529.  Gene #51: 'del_1p36.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 1(1P36.21) MUTATED 45 5 6 5 7
DEL PEAK 1(1P36.21) WILD-TYPE 119 75 100 128 40

Figure S529.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_1p36.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S530.  Gene #51: 'del_1p36.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 1(1P36.21) MUTATED 16 49 3
DEL PEAK 1(1P36.21) WILD-TYPE 202 123 137

Figure S530.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_1p36.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00351 (Fisher's exact test), Q value = 0.0045

Table S531.  Gene #51: 'del_1p36.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 1(1P36.21) MUTATED 21 6 22 11
DEL PEAK 1(1P36.21) WILD-TYPE 95 92 70 81

Figure S531.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_1p36.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00062 (Fisher's exact test), Q value = 0.00084

Table S532.  Gene #51: 'del_1p36.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 1(1P36.21) MUTATED 29 8 23
DEL PEAK 1(1P36.21) WILD-TYPE 134 124 80

Figure S532.  Get High-res Image Gene #51: 'del_1p36.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_1p36.11' versus 'MRNA_CNMF'

P value = 0.0422 (Fisher's exact test), Q value = 0.048

Table S533.  Gene #52: 'del_1p36.11' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 2(1P36.11) MUTATED 1 5 0 0
DEL PEAK 2(1P36.11) WILD-TYPE 14 12 14 7

Figure S533.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_1p36.11' versus 'MRNA_CHIERARCHICAL'

P value = 0.00775 (Fisher's exact test), Q value = 0.0095

Table S534.  Gene #52: 'del_1p36.11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 2(1P36.11) MUTATED 2 4 0 0 0
DEL PEAK 2(1P36.11) WILD-TYPE 12 5 7 7 16

Figure S534.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_1p36.11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S535.  Gene #52: 'del_1p36.11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 2(1P36.11) MUTATED 79 1 1 2
DEL PEAK 2(1P36.11) WILD-TYPE 129 177 98 52

Figure S535.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #3: 'CN_CNMF'

'del_1p36.11' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S536.  Gene #52: 'del_1p36.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 2(1P36.11) MUTATED 47 19 8
DEL PEAK 2(1P36.11) WILD-TYPE 107 59 185

Figure S536.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p36.11' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S537.  Gene #52: 'del_1p36.11' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 2(1P36.11) MUTATED 2 0 5 16 22 9 11
DEL PEAK 2(1P36.11) WILD-TYPE 37 81 47 40 62 59 42

Figure S537.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_1p36.11' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S538.  Gene #52: 'del_1p36.11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 2(1P36.11) MUTATED 2 43 13 7
DEL PEAK 2(1P36.11) WILD-TYPE 106 139 80 43

Figure S538.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_1p36.11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S539.  Gene #52: 'del_1p36.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 2(1P36.11) MUTATED 65 6 9 3
DEL PEAK 2(1P36.11) WILD-TYPE 123 117 84 130

Figure S539.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_1p36.11' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S540.  Gene #52: 'del_1p36.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 2(1P36.11) MUTATED 51 1 10 4 14 3 0
DEL PEAK 2(1P36.11) WILD-TYPE 72 52 37 61 94 63 75

Figure S540.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_1p36.11' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S541.  Gene #52: 'del_1p36.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 2(1P36.11) MUTATED 58 4 6 6 6
DEL PEAK 2(1P36.11) WILD-TYPE 106 76 100 127 41

Figure S541.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_1p36.11' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S542.  Gene #52: 'del_1p36.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 2(1P36.11) MUTATED 19 58 3
DEL PEAK 2(1P36.11) WILD-TYPE 199 114 137

Figure S542.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_1p36.11' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00052 (Fisher's exact test), Q value = 0.00072

Table S543.  Gene #52: 'del_1p36.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 2(1P36.11) MUTATED 33 7 19 14
DEL PEAK 2(1P36.11) WILD-TYPE 83 91 73 78

Figure S543.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_1p36.11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S544.  Gene #52: 'del_1p36.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 2(1P36.11) MUTATED 43 8 22
DEL PEAK 2(1P36.11) WILD-TYPE 120 124 81

Figure S544.  Get High-res Image Gene #52: 'del_1p36.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_2p25.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S545.  Gene #53: 'del_2p25.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 3(2P25.3) MUTATED 25 0 1 0
DEL PEAK 3(2P25.3) WILD-TYPE 183 178 98 54

Figure S545.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_2p25.3' versus 'METHLYATION_CNMF'

P value = 0.00058 (Fisher's exact test), Q value = 0.00079

Table S546.  Gene #53: 'del_2p25.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 3(2P25.3) MUTATED 17 5 3
DEL PEAK 3(2P25.3) WILD-TYPE 137 73 190

Figure S546.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2p25.3' versus 'RPPA_CNMF'

P value = 0.0219 (Fisher's exact test), Q value = 0.025

Table S547.  Gene #53: 'del_2p25.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 3(2P25.3) MUTATED 1 1 0 6 6 1 4
DEL PEAK 3(2P25.3) WILD-TYPE 38 80 52 50 78 67 49

Figure S547.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_2p25.3' versus 'MRNASEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S548.  Gene #53: 'del_2p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 3(2P25.3) MUTATED 21 1 1 3
DEL PEAK 3(2P25.3) WILD-TYPE 167 122 92 130

Figure S548.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2p25.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.00016

Table S549.  Gene #53: 'del_2p25.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 3(2P25.3) MUTATED 16 1 3 0 3 3 0
DEL PEAK 3(2P25.3) WILD-TYPE 107 52 44 65 105 63 75

Figure S549.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2p25.3' versus 'MIRSEQ_CNMF'

P value = 0.00021 (Fisher's exact test), Q value = 3e-04

Table S550.  Gene #53: 'del_2p25.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 3(2P25.3) MUTATED 18 2 0 3 3
DEL PEAK 3(2P25.3) WILD-TYPE 146 78 106 130 44

Figure S550.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2p25.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00217 (Fisher's exact test), Q value = 0.0028

Table S551.  Gene #53: 'del_2p25.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 3(2P25.3) MUTATED 6 17 3
DEL PEAK 3(2P25.3) WILD-TYPE 212 155 137

Figure S551.  Get High-res Image Gene #53: 'del_2p25.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2q22.1' versus 'MRNA_CNMF'

P value = 0.00799 (Fisher's exact test), Q value = 0.0097

Table S552.  Gene #54: 'del_2q22.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 4(2Q22.1) MUTATED 0 5 0 0
DEL PEAK 4(2Q22.1) WILD-TYPE 15 12 14 7

Figure S552.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_2q22.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00518 (Fisher's exact test), Q value = 0.0064

Table S553.  Gene #54: 'del_2q22.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 4(2Q22.1) MUTATED 1 4 0 0 0
DEL PEAK 4(2Q22.1) WILD-TYPE 13 5 7 7 16

Figure S553.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_2q22.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S554.  Gene #54: 'del_2q22.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 4(2Q22.1) MUTATED 49 0 0 0
DEL PEAK 4(2Q22.1) WILD-TYPE 159 178 99 54

Figure S554.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_2q22.1' versus 'METHLYATION_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S555.  Gene #54: 'del_2q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 4(2Q22.1) MUTATED 24 13 6
DEL PEAK 4(2Q22.1) WILD-TYPE 130 65 187

Figure S555.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2q22.1' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S556.  Gene #54: 'del_2q22.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 4(2Q22.1) MUTATED 0 1 2 6 19 7 5
DEL PEAK 4(2Q22.1) WILD-TYPE 39 80 50 50 65 61 48

Figure S556.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_2q22.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.00065 (Fisher's exact test), Q value = 0.00088

Table S557.  Gene #54: 'del_2q22.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 4(2Q22.1) MUTATED 1 22 13 4
DEL PEAK 4(2Q22.1) WILD-TYPE 107 160 80 46

Figure S557.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_2q22.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S558.  Gene #54: 'del_2q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 4(2Q22.1) MUTATED 41 0 3 5
DEL PEAK 4(2Q22.1) WILD-TYPE 147 123 90 128

Figure S558.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2q22.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S559.  Gene #54: 'del_2q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 4(2Q22.1) MUTATED 32 0 3 0 9 5 0
DEL PEAK 4(2Q22.1) WILD-TYPE 91 53 44 65 99 61 75

Figure S559.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2q22.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S560.  Gene #54: 'del_2q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 4(2Q22.1) MUTATED 36 4 3 4 0
DEL PEAK 4(2Q22.1) WILD-TYPE 128 76 103 129 47

Figure S560.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2q22.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S561.  Gene #54: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 4(2Q22.1) MUTATED 14 29 4
DEL PEAK 4(2Q22.1) WILD-TYPE 204 143 136

Figure S561.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2q22.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00026 (Fisher's exact test), Q value = 0.00037

Table S562.  Gene #54: 'del_2q22.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 4(2Q22.1) MUTATED 25 6 4 7
DEL PEAK 4(2Q22.1) WILD-TYPE 91 92 88 85

Figure S562.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_2q22.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00502 (Fisher's exact test), Q value = 0.0062

Table S563.  Gene #54: 'del_2q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 4(2Q22.1) MUTATED 27 7 8
DEL PEAK 4(2Q22.1) WILD-TYPE 136 125 95

Figure S563.  Get High-res Image Gene #54: 'del_2q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_2q37.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S564.  Gene #55: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 5(2Q37.3) MUTATED 49 1 0 2
DEL PEAK 5(2Q37.3) WILD-TYPE 159 177 99 52

Figure S564.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_2q37.3' versus 'METHLYATION_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S565.  Gene #55: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 5(2Q37.3) MUTATED 30 10 8
DEL PEAK 5(2Q37.3) WILD-TYPE 124 68 185

Figure S565.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2q37.3' versus 'RPPA_CNMF'

P value = 0.00378 (Fisher's exact test), Q value = 0.0048

Table S566.  Gene #55: 'del_2q37.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 5(2Q37.3) MUTATED 1 1 3 7 13 4 8
DEL PEAK 5(2Q37.3) WILD-TYPE 38 80 49 49 71 64 45

Figure S566.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_2q37.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.0053 (Fisher's exact test), Q value = 0.0066

Table S567.  Gene #55: 'del_2q37.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 5(2Q37.3) MUTATED 2 24 7 4
DEL PEAK 5(2Q37.3) WILD-TYPE 106 158 86 46

Figure S567.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_2q37.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S568.  Gene #55: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 5(2Q37.3) MUTATED 37 1 6 7
DEL PEAK 5(2Q37.3) WILD-TYPE 151 122 87 126

Figure S568.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2q37.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S569.  Gene #55: 'del_2q37.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 5(2Q37.3) MUTATED 23 0 9 3 10 6 0
DEL PEAK 5(2Q37.3) WILD-TYPE 100 53 38 62 98 60 75

Figure S569.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2q37.3' versus 'MIRSEQ_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.00031

Table S570.  Gene #55: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 5(2Q37.3) MUTATED 31 4 5 7 4
DEL PEAK 5(2Q37.3) WILD-TYPE 133 76 101 126 43

Figure S570.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2q37.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00089 (Fisher's exact test), Q value = 0.0012

Table S571.  Gene #55: 'del_2q37.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 5(2Q37.3) MUTATED 14 29 8
DEL PEAK 5(2Q37.3) WILD-TYPE 204 143 132

Figure S571.  Get High-res Image Gene #55: 'del_2q37.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MRNA_CNMF'

P value = 0.0426 (Fisher's exact test), Q value = 0.048

Table S572.  Gene #56: 'del_3p14.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 6(3P14.2) MUTATED 1 5 0 0
DEL PEAK 6(3P14.2) WILD-TYPE 14 12 14 7

Figure S572.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_3p14.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00798 (Fisher's exact test), Q value = 0.0097

Table S573.  Gene #56: 'del_3p14.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 6(3P14.2) MUTATED 2 4 0 0 0
DEL PEAK 6(3P14.2) WILD-TYPE 12 5 7 7 16

Figure S573.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_3p14.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S574.  Gene #56: 'del_3p14.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 6(3P14.2) MUTATED 75 0 1 3
DEL PEAK 6(3P14.2) WILD-TYPE 133 178 98 51

Figure S574.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_3p14.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S575.  Gene #56: 'del_3p14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 6(3P14.2) MUTATED 45 17 6
DEL PEAK 6(3P14.2) WILD-TYPE 109 61 187

Figure S575.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_3p14.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S576.  Gene #56: 'del_3p14.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 6(3P14.2) MUTATED 2 1 4 12 28 10 6
DEL PEAK 6(3P14.2) WILD-TYPE 37 80 48 44 56 58 47

Figure S576.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_3p14.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S577.  Gene #56: 'del_3p14.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 6(3P14.2) MUTATED 2 47 12 2
DEL PEAK 6(3P14.2) WILD-TYPE 106 135 81 48

Figure S577.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_3p14.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S578.  Gene #56: 'del_3p14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 6(3P14.2) MUTATED 65 3 6 4
DEL PEAK 6(3P14.2) WILD-TYPE 123 120 87 129

Figure S578.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_3p14.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S579.  Gene #56: 'del_3p14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 6(3P14.2) MUTATED 49 0 12 0 12 5 0
DEL PEAK 6(3P14.2) WILD-TYPE 74 53 35 65 96 61 75

Figure S579.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S580.  Gene #56: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 6(3P14.2) MUTATED 56 5 6 4 6
DEL PEAK 6(3P14.2) WILD-TYPE 108 75 100 129 41

Figure S580.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_3p14.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S581.  Gene #56: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 6(3P14.2) MUTATED 19 55 3
DEL PEAK 6(3P14.2) WILD-TYPE 199 117 137

Figure S581.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00532 (Fisher's exact test), Q value = 0.0066

Table S582.  Gene #56: 'del_3p14.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 6(3P14.2) MUTATED 28 7 13 18
DEL PEAK 6(3P14.2) WILD-TYPE 88 91 79 74

Figure S582.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_3p14.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S583.  Gene #56: 'del_3p14.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 6(3P14.2) MUTATED 43 7 16
DEL PEAK 6(3P14.2) WILD-TYPE 120 125 87

Figure S583.  Get High-res Image Gene #56: 'del_3p14.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_3q13.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S584.  Gene #57: 'del_3q13.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 7(3Q13.31) MUTATED 36 2 2 3
DEL PEAK 7(3Q13.31) WILD-TYPE 172 176 97 51

Figure S584.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_3q13.31' versus 'METHLYATION_CNMF'

P value = 0.0105 (Fisher's exact test), Q value = 0.013

Table S585.  Gene #57: 'del_3q13.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 7(3Q13.31) MUTATED 19 9 8
DEL PEAK 7(3Q13.31) WILD-TYPE 135 69 185

Figure S585.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_3q13.31' versus 'RPPA_CHIERARCHICAL'

P value = 0.00367 (Fisher's exact test), Q value = 0.0047

Table S586.  Gene #57: 'del_3q13.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 7(3Q13.31) MUTATED 1 21 8 4
DEL PEAK 7(3Q13.31) WILD-TYPE 107 161 85 46

Figure S586.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_3q13.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S587.  Gene #57: 'del_3q13.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 7(3Q13.31) MUTATED 33 4 1 5
DEL PEAK 7(3Q13.31) WILD-TYPE 155 119 92 128

Figure S587.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_3q13.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S588.  Gene #57: 'del_3q13.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 7(3Q13.31) MUTATED 28 2 4 0 3 5 1
DEL PEAK 7(3Q13.31) WILD-TYPE 95 51 43 65 105 61 74

Figure S588.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_3q13.31' versus 'MIRSEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S589.  Gene #57: 'del_3q13.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 7(3Q13.31) MUTATED 28 3 2 5 3
DEL PEAK 7(3Q13.31) WILD-TYPE 136 77 104 128 44

Figure S589.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_3q13.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S590.  Gene #57: 'del_3q13.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 7(3Q13.31) MUTATED 10 27 4
DEL PEAK 7(3Q13.31) WILD-TYPE 208 145 136

Figure S590.  Get High-res Image Gene #57: 'del_3q13.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p16.3' versus 'MRNA_CNMF'

P value = 0.0113 (Fisher's exact test), Q value = 0.013

Table S591.  Gene #58: 'del_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 8(4P16.3) MUTATED 1 6 0 0
DEL PEAK 8(4P16.3) WILD-TYPE 14 11 14 7

Figure S591.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4p16.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00108 (Fisher's exact test), Q value = 0.0014

Table S592.  Gene #58: 'del_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 8(4P16.3) MUTATED 2 5 0 0 0
DEL PEAK 8(4P16.3) WILD-TYPE 12 4 7 7 16

Figure S592.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4p16.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S593.  Gene #58: 'del_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 8(4P16.3) MUTATED 90 1 1 2
DEL PEAK 8(4P16.3) WILD-TYPE 118 177 98 52

Figure S593.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_4p16.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S594.  Gene #58: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 8(4P16.3) MUTATED 55 18 9
DEL PEAK 8(4P16.3) WILD-TYPE 99 60 184

Figure S594.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4p16.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S595.  Gene #58: 'del_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 8(4P16.3) MUTATED 4 0 5 14 29 10 13
DEL PEAK 8(4P16.3) WILD-TYPE 35 81 47 42 55 58 40

Figure S595.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4p16.3' versus 'RPPA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S596.  Gene #58: 'del_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 8(4P16.3) MUTATED 5 46 15 9
DEL PEAK 8(4P16.3) WILD-TYPE 103 136 78 41

Figure S596.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4p16.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S597.  Gene #58: 'del_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 8(4P16.3) MUTATED 71 5 11 7
DEL PEAK 8(4P16.3) WILD-TYPE 117 118 82 126

Figure S597.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4p16.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S598.  Gene #58: 'del_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 8(4P16.3) MUTATED 55 1 15 2 14 6 1
DEL PEAK 8(4P16.3) WILD-TYPE 68 52 32 63 94 60 74

Figure S598.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4p16.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S599.  Gene #58: 'del_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 8(4P16.3) MUTATED 66 6 3 8 8
DEL PEAK 8(4P16.3) WILD-TYPE 98 74 103 125 39

Figure S599.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4p16.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S600.  Gene #58: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 8(4P16.3) MUTATED 23 62 6
DEL PEAK 8(4P16.3) WILD-TYPE 195 110 134

Figure S600.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p16.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S601.  Gene #58: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 8(4P16.3) MUTATED 37 7 20 16
DEL PEAK 8(4P16.3) WILD-TYPE 79 91 72 76

Figure S601.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.00011

Table S602.  Gene #58: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 8(4P16.3) MUTATED 44 11 25
DEL PEAK 8(4P16.3) WILD-TYPE 119 121 78

Figure S602.  Get High-res Image Gene #58: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4p15.31' versus 'MRNA_CNMF'

P value = 0.0113 (Fisher's exact test), Q value = 0.013

Table S603.  Gene #59: 'del_4p15.31' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 9(4P15.31) MUTATED 1 6 0 0
DEL PEAK 9(4P15.31) WILD-TYPE 14 11 14 7

Figure S603.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4p15.31' versus 'MRNA_CHIERARCHICAL'

P value = 0.0096 (Fisher's exact test), Q value = 0.012

Table S604.  Gene #59: 'del_4p15.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 9(4P15.31) MUTATED 3 4 0 0 0
DEL PEAK 9(4P15.31) WILD-TYPE 11 5 7 7 16

Figure S604.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4p15.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S605.  Gene #59: 'del_4p15.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 9(4P15.31) MUTATED 95 1 0 3
DEL PEAK 9(4P15.31) WILD-TYPE 113 177 99 51

Figure S605.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_4p15.31' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S606.  Gene #59: 'del_4p15.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 9(4P15.31) MUTATED 60 20 8
DEL PEAK 9(4P15.31) WILD-TYPE 94 58 185

Figure S606.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4p15.31' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S607.  Gene #59: 'del_4p15.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 9(4P15.31) MUTATED 4 1 4 19 30 10 12
DEL PEAK 9(4P15.31) WILD-TYPE 35 80 48 37 54 58 41

Figure S607.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4p15.31' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S608.  Gene #59: 'del_4p15.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 9(4P15.31) MUTATED 5 53 15 7
DEL PEAK 9(4P15.31) WILD-TYPE 103 129 78 43

Figure S608.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4p15.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S609.  Gene #59: 'del_4p15.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 9(4P15.31) MUTATED 76 5 11 7
DEL PEAK 9(4P15.31) WILD-TYPE 112 118 82 126

Figure S609.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4p15.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S610.  Gene #59: 'del_4p15.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 9(4P15.31) MUTATED 58 1 16 2 16 5 1
DEL PEAK 9(4P15.31) WILD-TYPE 65 52 31 63 92 61 74

Figure S610.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4p15.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S611.  Gene #59: 'del_4p15.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 9(4P15.31) MUTATED 73 5 4 7 8
DEL PEAK 9(4P15.31) WILD-TYPE 91 75 102 126 39

Figure S611.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4p15.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S612.  Gene #59: 'del_4p15.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 9(4P15.31) MUTATED 22 70 5
DEL PEAK 9(4P15.31) WILD-TYPE 196 102 135

Figure S612.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p15.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S613.  Gene #59: 'del_4p15.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 9(4P15.31) MUTATED 43 6 20 18
DEL PEAK 9(4P15.31) WILD-TYPE 73 92 72 74

Figure S613.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4p15.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S614.  Gene #59: 'del_4p15.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 9(4P15.31) MUTATED 49 10 28
DEL PEAK 9(4P15.31) WILD-TYPE 114 122 75

Figure S614.  Get High-res Image Gene #59: 'del_4p15.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q22.1' versus 'MRNA_CNMF'

P value = 0.00369 (Fisher's exact test), Q value = 0.0047

Table S615.  Gene #60: 'del_4q22.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 10(4Q22.1) MUTATED 1 7 0 0
DEL PEAK 10(4Q22.1) WILD-TYPE 14 10 14 7

Figure S615.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4q22.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.00016

Table S616.  Gene #60: 'del_4q22.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 10(4Q22.1) MUTATED 2 6 0 0 0
DEL PEAK 10(4Q22.1) WILD-TYPE 12 3 7 7 16

Figure S616.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4q22.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S617.  Gene #60: 'del_4q22.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 10(4Q22.1) MUTATED 105 0 0 1
DEL PEAK 10(4Q22.1) WILD-TYPE 103 178 99 53

Figure S617.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_4q22.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S618.  Gene #60: 'del_4q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 10(4Q22.1) MUTATED 63 23 6
DEL PEAK 10(4Q22.1) WILD-TYPE 91 55 187

Figure S618.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4q22.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S619.  Gene #60: 'del_4q22.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 10(4Q22.1) MUTATED 3 2 3 16 32 14 14
DEL PEAK 10(4Q22.1) WILD-TYPE 36 79 49 40 52 54 39

Figure S619.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4q22.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S620.  Gene #60: 'del_4q22.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 10(4Q22.1) MUTATED 4 53 18 9
DEL PEAK 10(4Q22.1) WILD-TYPE 104 129 75 41

Figure S620.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4q22.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S621.  Gene #60: 'del_4q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 10(4Q22.1) MUTATED 87 4 9 6
DEL PEAK 10(4Q22.1) WILD-TYPE 101 119 84 127

Figure S621.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4q22.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S622.  Gene #60: 'del_4q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 10(4Q22.1) MUTATED 68 1 12 2 18 5 0
DEL PEAK 10(4Q22.1) WILD-TYPE 55 52 35 63 90 61 75

Figure S622.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4q22.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S623.  Gene #60: 'del_4q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 10(4Q22.1) MUTATED 74 4 8 6 11
DEL PEAK 10(4Q22.1) WILD-TYPE 90 76 98 127 36

Figure S623.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4q22.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S624.  Gene #60: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 10(4Q22.1) MUTATED 24 76 3
DEL PEAK 10(4Q22.1) WILD-TYPE 194 96 137

Figure S624.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4q22.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S625.  Gene #60: 'del_4q22.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 10(4Q22.1) MUTATED 44 5 22 19
DEL PEAK 10(4Q22.1) WILD-TYPE 72 93 70 73

Figure S625.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4q22.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S626.  Gene #60: 'del_4q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 10(4Q22.1) MUTATED 51 8 31
DEL PEAK 10(4Q22.1) WILD-TYPE 112 124 72

Figure S626.  Get High-res Image Gene #60: 'del_4q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q34.3' versus 'MRNA_CNMF'

P value = 0.00402 (Fisher's exact test), Q value = 0.0051

Table S627.  Gene #61: 'del_4q34.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 11(4Q34.3) MUTATED 1 7 0 0
DEL PEAK 11(4Q34.3) WILD-TYPE 14 10 14 7

Figure S627.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4q34.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00018 (Fisher's exact test), Q value = 0.00026

Table S628.  Gene #61: 'del_4q34.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 11(4Q34.3) MUTATED 2 6 0 0 0
DEL PEAK 11(4Q34.3) WILD-TYPE 12 3 7 7 16

Figure S628.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4q34.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S629.  Gene #61: 'del_4q34.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 11(4Q34.3) MUTATED 125 2 0 3
DEL PEAK 11(4Q34.3) WILD-TYPE 83 176 99 51

Figure S629.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_4q34.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S630.  Gene #61: 'del_4q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 11(4Q34.3) MUTATED 70 31 13
DEL PEAK 11(4Q34.3) WILD-TYPE 84 47 180

Figure S630.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4q34.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S631.  Gene #61: 'del_4q34.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 11(4Q34.3) MUTATED 5 3 7 19 36 17 17
DEL PEAK 11(4Q34.3) WILD-TYPE 34 78 45 37 48 51 36

Figure S631.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4q34.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S632.  Gene #61: 'del_4q34.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 11(4Q34.3) MUTATED 7 66 22 9
DEL PEAK 11(4Q34.3) WILD-TYPE 101 116 71 41

Figure S632.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4q34.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S633.  Gene #61: 'del_4q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 11(4Q34.3) MUTATED 102 8 13 7
DEL PEAK 11(4Q34.3) WILD-TYPE 86 115 80 126

Figure S633.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4q34.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S634.  Gene #61: 'del_4q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 11(4Q34.3) MUTATED 81 1 16 3 23 6 0
DEL PEAK 11(4Q34.3) WILD-TYPE 42 52 31 62 85 60 75

Figure S634.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4q34.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S635.  Gene #61: 'del_4q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 11(4Q34.3) MUTATED 90 10 10 7 10
DEL PEAK 11(4Q34.3) WILD-TYPE 74 70 96 126 37

Figure S635.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4q34.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S636.  Gene #61: 'del_4q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 11(4Q34.3) MUTATED 33 89 5
DEL PEAK 11(4Q34.3) WILD-TYPE 185 83 135

Figure S636.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4q34.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S637.  Gene #61: 'del_4q34.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 11(4Q34.3) MUTATED 55 8 29 20
DEL PEAK 11(4Q34.3) WILD-TYPE 61 90 63 72

Figure S637.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4q34.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S638.  Gene #61: 'del_4q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 11(4Q34.3) MUTATED 61 10 41
DEL PEAK 11(4Q34.3) WILD-TYPE 102 122 62

Figure S638.  Get High-res Image Gene #61: 'del_4q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_5q12.1' versus 'MRNA_CNMF'

P value = 0.0116 (Fisher's exact test), Q value = 0.014

Table S639.  Gene #62: 'del_5q12.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 12(5Q12.1) MUTATED 1 6 0 0
DEL PEAK 12(5Q12.1) WILD-TYPE 14 11 14 7

Figure S639.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_5q12.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00984 (Fisher's exact test), Q value = 0.012

Table S640.  Gene #62: 'del_5q12.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 12(5Q12.1) MUTATED 3 4 0 0 0
DEL PEAK 12(5Q12.1) WILD-TYPE 11 5 7 7 16

Figure S640.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_5q12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S641.  Gene #62: 'del_5q12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 12(5Q12.1) MUTATED 107 0 0 4
DEL PEAK 12(5Q12.1) WILD-TYPE 101 178 99 50

Figure S641.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_5q12.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S642.  Gene #62: 'del_5q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 12(5Q12.1) MUTATED 65 21 11
DEL PEAK 12(5Q12.1) WILD-TYPE 89 57 182

Figure S642.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_5q12.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S643.  Gene #62: 'del_5q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 12(5Q12.1) MUTATED 0 2 5 23 32 11 13
DEL PEAK 12(5Q12.1) WILD-TYPE 39 79 47 33 52 57 40

Figure S643.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_5q12.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S644.  Gene #62: 'del_5q12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 12(5Q12.1) MUTATED 0 58 19 9
DEL PEAK 12(5Q12.1) WILD-TYPE 108 124 74 41

Figure S644.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_5q12.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S645.  Gene #62: 'del_5q12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 12(5Q12.1) MUTATED 87 6 9 8
DEL PEAK 12(5Q12.1) WILD-TYPE 101 117 84 125

Figure S645.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_5q12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S646.  Gene #62: 'del_5q12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 12(5Q12.1) MUTATED 69 0 11 2 18 10 0
DEL PEAK 12(5Q12.1) WILD-TYPE 54 53 36 63 90 56 75

Figure S646.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_5q12.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S647.  Gene #62: 'del_5q12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 12(5Q12.1) MUTATED 77 5 7 9 12
DEL PEAK 12(5Q12.1) WILD-TYPE 87 75 99 124 35

Figure S647.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_5q12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S648.  Gene #62: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 12(5Q12.1) MUTATED 26 76 8
DEL PEAK 12(5Q12.1) WILD-TYPE 192 96 132

Figure S648.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_5q12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S649.  Gene #62: 'del_5q12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 12(5Q12.1) MUTATED 52 9 18 16
DEL PEAK 12(5Q12.1) WILD-TYPE 64 89 74 76

Figure S649.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_5q12.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S650.  Gene #62: 'del_5q12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 12(5Q12.1) MUTATED 56 14 25
DEL PEAK 12(5Q12.1) WILD-TYPE 107 118 78

Figure S650.  Get High-res Image Gene #62: 'del_5q12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q26' versus 'MRNA_CHIERARCHICAL'

P value = 0.0302 (Fisher's exact test), Q value = 0.035

Table S651.  Gene #63: 'del_6q26' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 13(6Q26) MUTATED 1 3 0 0 0
DEL PEAK 13(6Q26) WILD-TYPE 13 6 7 7 16

Figure S651.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_6q26' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S652.  Gene #63: 'del_6q26' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 13(6Q26) MUTATED 41 3 0 2
DEL PEAK 13(6Q26) WILD-TYPE 167 175 99 52

Figure S652.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #3: 'CN_CNMF'

'del_6q26' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S653.  Gene #63: 'del_6q26' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 13(6Q26) MUTATED 26 13 1
DEL PEAK 13(6Q26) WILD-TYPE 128 65 192

Figure S653.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_6q26' versus 'RPPA_CNMF'

P value = 0.00037 (Fisher's exact test), Q value = 0.00052

Table S654.  Gene #63: 'del_6q26' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 13(6Q26) MUTATED 2 0 1 7 14 5 7
DEL PEAK 13(6Q26) WILD-TYPE 37 81 51 49 70 63 46

Figure S654.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_6q26' versus 'RPPA_CHIERARCHICAL'

P value = 0.00149 (Fisher's exact test), Q value = 0.002

Table S655.  Gene #63: 'del_6q26' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 13(6Q26) MUTATED 1 23 7 5
DEL PEAK 13(6Q26) WILD-TYPE 107 159 86 45

Figure S655.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_6q26' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S656.  Gene #63: 'del_6q26' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 13(6Q26) MUTATED 39 2 3 2
DEL PEAK 13(6Q26) WILD-TYPE 149 121 90 131

Figure S656.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_6q26' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S657.  Gene #63: 'del_6q26' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 13(6Q26) MUTATED 36 1 3 0 5 0 1
DEL PEAK 13(6Q26) WILD-TYPE 87 52 44 65 103 66 74

Figure S657.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_6q26' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S658.  Gene #63: 'del_6q26' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 13(6Q26) MUTATED 34 4 1 2 4
DEL PEAK 13(6Q26) WILD-TYPE 130 76 105 131 43

Figure S658.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_6q26' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S659.  Gene #63: 'del_6q26' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 13(6Q26) MUTATED 10 34 1
DEL PEAK 13(6Q26) WILD-TYPE 208 138 139

Figure S659.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_6q26' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-04 (Fisher's exact test), Q value = 0.00029

Table S660.  Gene #63: 'del_6q26' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 13(6Q26) MUTATED 21 2 11 5
DEL PEAK 13(6Q26) WILD-TYPE 95 96 81 87

Figure S660.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_6q26' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00021 (Fisher's exact test), Q value = 3e-04

Table S661.  Gene #63: 'del_6q26' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 13(6Q26) MUTATED 19 3 17
DEL PEAK 13(6Q26) WILD-TYPE 144 129 86

Figure S661.  Get High-res Image Gene #63: 'del_6q26' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7p22.3' versus 'MRNA_CNMF'

P value = 0.00051 (Fisher's exact test), Q value = 0.00071

Table S662.  Gene #64: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 14(7P22.3) MUTATED 0 7 0 0
DEL PEAK 14(7P22.3) WILD-TYPE 15 10 14 7

Figure S662.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_7p22.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.01 (Fisher's exact test), Q value = 0.012

Table S663.  Gene #64: 'del_7p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 14(7P22.3) MUTATED 3 4 0 0 0
DEL PEAK 14(7P22.3) WILD-TYPE 11 5 7 7 16

Figure S663.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_7p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S664.  Gene #64: 'del_7p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 14(7P22.3) MUTATED 66 3 1 2
DEL PEAK 14(7P22.3) WILD-TYPE 142 175 98 52

Figure S664.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_7p22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S665.  Gene #64: 'del_7p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 14(7P22.3) MUTATED 39 19 5
DEL PEAK 14(7P22.3) WILD-TYPE 115 59 188

Figure S665.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7p22.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S666.  Gene #64: 'del_7p22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 14(7P22.3) MUTATED 1 2 1 14 22 5 12
DEL PEAK 14(7P22.3) WILD-TYPE 38 79 51 42 62 63 41

Figure S666.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_7p22.3' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S667.  Gene #64: 'del_7p22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 14(7P22.3) MUTATED 2 36 9 10
DEL PEAK 14(7P22.3) WILD-TYPE 106 146 84 40

Figure S667.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_7p22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S668.  Gene #64: 'del_7p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 14(7P22.3) MUTATED 61 3 5 3
DEL PEAK 14(7P22.3) WILD-TYPE 127 120 88 130

Figure S668.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_7p22.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S669.  Gene #64: 'del_7p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 14(7P22.3) MUTATED 51 0 9 0 8 4 0
DEL PEAK 14(7P22.3) WILD-TYPE 72 53 38 65 100 62 75

Figure S669.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_7p22.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S670.  Gene #64: 'del_7p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 14(7P22.3) MUTATED 52 3 4 5 7
DEL PEAK 14(7P22.3) WILD-TYPE 112 77 102 128 40

Figure S670.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_7p22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S671.  Gene #64: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 14(7P22.3) MUTATED 14 55 2
DEL PEAK 14(7P22.3) WILD-TYPE 204 117 138

Figure S671.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00094 (Fisher's exact test), Q value = 0.0013

Table S672.  Gene #64: 'del_7p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 14(7P22.3) MUTATED 26 4 15 14
DEL PEAK 14(7P22.3) WILD-TYPE 90 94 77 78

Figure S672.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7p22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S673.  Gene #64: 'del_7p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 14(7P22.3) MUTATED 34 5 20
DEL PEAK 14(7P22.3) WILD-TYPE 129 127 83

Figure S673.  Get High-res Image Gene #64: 'del_7p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7q11.22' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S674.  Gene #65: 'del_7q11.22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 15(7Q11.22) MUTATED 41 0 0 0
DEL PEAK 15(7Q11.22) WILD-TYPE 167 178 99 54

Figure S674.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #3: 'CN_CNMF'

'del_7q11.22' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S675.  Gene #65: 'del_7q11.22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 15(7Q11.22) MUTATED 23 11 4
DEL PEAK 15(7Q11.22) WILD-TYPE 131 67 189

Figure S675.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q11.22' versus 'RPPA_CNMF'

P value = 0.00064 (Fisher's exact test), Q value = 0.00087

Table S676.  Gene #65: 'del_7q11.22' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 15(7Q11.22) MUTATED 0 2 0 7 14 6 4
DEL PEAK 15(7Q11.22) WILD-TYPE 39 79 52 49 70 62 49

Figure S676.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_7q11.22' versus 'RPPA_CHIERARCHICAL'

P value = 0.00248 (Fisher's exact test), Q value = 0.0032

Table S677.  Gene #65: 'del_7q11.22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 15(7Q11.22) MUTATED 1 22 7 3
DEL PEAK 15(7Q11.22) WILD-TYPE 107 160 86 47

Figure S677.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_7q11.22' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S678.  Gene #65: 'del_7q11.22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 15(7Q11.22) MUTATED 35 1 3 2
DEL PEAK 15(7Q11.22) WILD-TYPE 153 122 90 131

Figure S678.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_7q11.22' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S679.  Gene #65: 'del_7q11.22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 15(7Q11.22) MUTATED 27 0 4 0 7 3 0
DEL PEAK 15(7Q11.22) WILD-TYPE 96 53 43 65 101 63 75

Figure S679.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_7q11.22' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S680.  Gene #65: 'del_7q11.22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 15(7Q11.22) MUTATED 33 1 1 3 2
DEL PEAK 15(7Q11.22) WILD-TYPE 131 79 105 130 45

Figure S680.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_7q11.22' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S681.  Gene #65: 'del_7q11.22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 15(7Q11.22) MUTATED 9 29 2
DEL PEAK 15(7Q11.22) WILD-TYPE 209 143 138

Figure S681.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q11.22' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0111 (Fisher's exact test), Q value = 0.013

Table S682.  Gene #65: 'del_7q11.22' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 15(7Q11.22) MUTATED 18 3 6 9
DEL PEAK 15(7Q11.22) WILD-TYPE 98 95 86 83

Figure S682.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7q11.22' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0046 (Fisher's exact test), Q value = 0.0058

Table S683.  Gene #65: 'del_7q11.22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 15(7Q11.22) MUTATED 22 4 10
DEL PEAK 15(7Q11.22) WILD-TYPE 141 128 93

Figure S683.  Get High-res Image Gene #65: 'del_7q11.22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7q31.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S684.  Gene #66: 'del_7q31.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 16(7Q31.1) MUTATED 55 0 0 0
DEL PEAK 16(7Q31.1) WILD-TYPE 153 178 99 54

Figure S684.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_7q31.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S685.  Gene #66: 'del_7q31.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 16(7Q31.1) MUTATED 32 16 2
DEL PEAK 16(7Q31.1) WILD-TYPE 122 62 191

Figure S685.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q31.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S686.  Gene #66: 'del_7q31.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 16(7Q31.1) MUTATED 1 1 1 8 23 6 8
DEL PEAK 16(7Q31.1) WILD-TYPE 38 80 51 48 61 62 45

Figure S686.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_7q31.1' versus 'RPPA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S687.  Gene #66: 'del_7q31.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 16(7Q31.1) MUTATED 1 31 10 6
DEL PEAK 16(7Q31.1) WILD-TYPE 107 151 83 44

Figure S687.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_7q31.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S688.  Gene #66: 'del_7q31.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 16(7Q31.1) MUTATED 52 0 2 1
DEL PEAK 16(7Q31.1) WILD-TYPE 136 123 91 132

Figure S688.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_7q31.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S689.  Gene #66: 'del_7q31.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 16(7Q31.1) MUTATED 44 0 4 0 5 2 0
DEL PEAK 16(7Q31.1) WILD-TYPE 79 53 43 65 103 64 75

Figure S689.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_7q31.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S690.  Gene #66: 'del_7q31.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 16(7Q31.1) MUTATED 45 1 2 3 3
DEL PEAK 16(7Q31.1) WILD-TYPE 119 79 104 130 44

Figure S690.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_7q31.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S691.  Gene #66: 'del_7q31.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 16(7Q31.1) MUTATED 8 44 2
DEL PEAK 16(7Q31.1) WILD-TYPE 210 128 138

Figure S691.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q31.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.00022

Table S692.  Gene #66: 'del_7q31.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 16(7Q31.1) MUTATED 26 3 8 10
DEL PEAK 16(7Q31.1) WILD-TYPE 90 95 84 82

Figure S692.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7q31.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00015 (Fisher's exact test), Q value = 0.00022

Table S693.  Gene #66: 'del_7q31.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 16(7Q31.1) MUTATED 27 4 16
DEL PEAK 16(7Q31.1) WILD-TYPE 136 128 87

Figure S693.  Get High-res Image Gene #66: 'del_7q31.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7q36.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S694.  Gene #67: 'del_7q36.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 17(7Q36.1) MUTATED 62 0 1 0
DEL PEAK 17(7Q36.1) WILD-TYPE 146 178 98 54

Figure S694.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_7q36.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S695.  Gene #67: 'del_7q36.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 17(7Q36.1) MUTATED 34 18 2
DEL PEAK 17(7Q36.1) WILD-TYPE 120 60 191

Figure S695.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q36.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S696.  Gene #67: 'del_7q36.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 17(7Q36.1) MUTATED 1 1 1 10 23 8 8
DEL PEAK 17(7Q36.1) WILD-TYPE 38 80 51 46 61 60 45

Figure S696.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_7q36.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S697.  Gene #67: 'del_7q36.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 17(7Q36.1) MUTATED 1 35 11 5
DEL PEAK 17(7Q36.1) WILD-TYPE 107 147 82 45

Figure S697.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_7q36.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S698.  Gene #67: 'del_7q36.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 17(7Q36.1) MUTATED 58 0 4 1
DEL PEAK 17(7Q36.1) WILD-TYPE 130 123 89 132

Figure S698.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_7q36.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S699.  Gene #67: 'del_7q36.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 17(7Q36.1) MUTATED 50 0 7 0 4 2 0
DEL PEAK 17(7Q36.1) WILD-TYPE 73 53 40 65 104 64 75

Figure S699.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_7q36.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S700.  Gene #67: 'del_7q36.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 17(7Q36.1) MUTATED 51 1 3 3 4
DEL PEAK 17(7Q36.1) WILD-TYPE 113 79 103 130 43

Figure S700.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_7q36.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S701.  Gene #67: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 17(7Q36.1) MUTATED 9 51 2
DEL PEAK 17(7Q36.1) WILD-TYPE 209 121 138

Figure S701.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q36.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S702.  Gene #67: 'del_7q36.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 17(7Q36.1) MUTATED 26 3 9 12
DEL PEAK 17(7Q36.1) WILD-TYPE 90 95 83 80

Figure S702.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7q36.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S703.  Gene #67: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 17(7Q36.1) MUTATED 31 3 16
DEL PEAK 17(7Q36.1) WILD-TYPE 132 129 87

Figure S703.  Get High-res Image Gene #67: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p23.2' versus 'MRNA_CNMF'

P value = 0.00218 (Fisher's exact test), Q value = 0.0028

Table S704.  Gene #68: 'del_8p23.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 18(8P23.2) MUTATED 0 6 0 0
DEL PEAK 18(8P23.2) WILD-TYPE 15 11 14 7

Figure S704.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_8p23.2' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S705.  Gene #68: 'del_8p23.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 18(8P23.2) MUTATED 0 6 0 0 0
DEL PEAK 18(8P23.2) WILD-TYPE 14 3 7 7 16

Figure S705.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_8p23.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S706.  Gene #68: 'del_8p23.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 18(8P23.2) MUTATED 111 3 2 3
DEL PEAK 18(8P23.2) WILD-TYPE 97 175 97 51

Figure S706.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_8p23.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S707.  Gene #68: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 18(8P23.2) MUTATED 71 29 5
DEL PEAK 18(8P23.2) WILD-TYPE 83 49 188

Figure S707.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_8p23.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S708.  Gene #68: 'del_8p23.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 18(8P23.2) MUTATED 3 2 6 16 36 17 18
DEL PEAK 18(8P23.2) WILD-TYPE 36 79 46 40 48 51 35

Figure S708.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_8p23.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S709.  Gene #68: 'del_8p23.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 18(8P23.2) MUTATED 3 62 21 12
DEL PEAK 18(8P23.2) WILD-TYPE 105 120 72 38

Figure S709.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_8p23.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S710.  Gene #68: 'del_8p23.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 18(8P23.2) MUTATED 98 5 11 4
DEL PEAK 18(8P23.2) WILD-TYPE 90 118 82 129

Figure S710.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_8p23.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S711.  Gene #68: 'del_8p23.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 18(8P23.2) MUTATED 77 0 20 1 14 5 1
DEL PEAK 18(8P23.2) WILD-TYPE 46 53 27 64 94 61 74

Figure S711.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_8p23.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S712.  Gene #68: 'del_8p23.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 18(8P23.2) MUTATED 85 4 10 7 10
DEL PEAK 18(8P23.2) WILD-TYPE 79 76 96 126 37

Figure S712.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_8p23.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S713.  Gene #68: 'del_8p23.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 18(8P23.2) MUTATED 20 91 5
DEL PEAK 18(8P23.2) WILD-TYPE 198 81 135

Figure S713.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_8p23.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S714.  Gene #68: 'del_8p23.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 18(8P23.2) MUTATED 49 5 20 25
DEL PEAK 18(8P23.2) WILD-TYPE 67 93 72 67

Figure S714.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_8p23.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S715.  Gene #68: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 18(8P23.2) MUTATED 58 6 35
DEL PEAK 18(8P23.2) WILD-TYPE 105 126 68

Figure S715.  Get High-res Image Gene #68: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p21.2' versus 'MRNA_CNMF'

P value = 0.00258 (Fisher's exact test), Q value = 0.0033

Table S716.  Gene #69: 'del_8p21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 19(8P21.2) MUTATED 0 6 0 0
DEL PEAK 19(8P21.2) WILD-TYPE 15 11 14 7

Figure S716.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_8p21.2' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S717.  Gene #69: 'del_8p21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 19(8P21.2) MUTATED 0 6 0 0 0
DEL PEAK 19(8P21.2) WILD-TYPE 14 3 7 7 16

Figure S717.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_8p21.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S718.  Gene #69: 'del_8p21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 19(8P21.2) MUTATED 112 2 0 3
DEL PEAK 19(8P21.2) WILD-TYPE 96 176 99 51

Figure S718.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_8p21.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S719.  Gene #69: 'del_8p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 19(8P21.2) MUTATED 73 28 2
DEL PEAK 19(8P21.2) WILD-TYPE 81 50 191

Figure S719.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_8p21.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S720.  Gene #69: 'del_8p21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 19(8P21.2) MUTATED 2 1 6 18 33 17 17
DEL PEAK 19(8P21.2) WILD-TYPE 37 80 46 38 51 51 36

Figure S720.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_8p21.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S721.  Gene #69: 'del_8p21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 19(8P21.2) MUTATED 1 62 20 11
DEL PEAK 19(8P21.2) WILD-TYPE 107 120 73 39

Figure S721.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_8p21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S722.  Gene #69: 'del_8p21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 19(8P21.2) MUTATED 101 4 10 1
DEL PEAK 19(8P21.2) WILD-TYPE 87 119 83 132

Figure S722.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_8p21.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S723.  Gene #69: 'del_8p21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 19(8P21.2) MUTATED 80 0 20 1 12 3 0
DEL PEAK 19(8P21.2) WILD-TYPE 43 53 27 64 96 63 75

Figure S723.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_8p21.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S724.  Gene #69: 'del_8p21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 19(8P21.2) MUTATED 87 4 11 3 9
DEL PEAK 19(8P21.2) WILD-TYPE 77 76 95 130 38

Figure S724.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_8p21.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S725.  Gene #69: 'del_8p21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 19(8P21.2) MUTATED 17 95 2
DEL PEAK 19(8P21.2) WILD-TYPE 201 77 138

Figure S725.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_8p21.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S726.  Gene #69: 'del_8p21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 19(8P21.2) MUTATED 49 2 21 26
DEL PEAK 19(8P21.2) WILD-TYPE 67 96 71 66

Figure S726.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_8p21.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S727.  Gene #69: 'del_8p21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 19(8P21.2) MUTATED 59 4 35
DEL PEAK 19(8P21.2) WILD-TYPE 104 128 68

Figure S727.  Get High-res Image Gene #69: 'del_8p21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p23' versus 'MRNA_CHIERARCHICAL'

P value = 0.0498 (Fisher's exact test), Q value = 0.056

Table S728.  Gene #70: 'del_9p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 20(9P23) MUTATED 2 3 0 0 0
DEL PEAK 20(9P23) WILD-TYPE 12 6 7 7 16

Figure S728.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9p23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S729.  Gene #70: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 20(9P23) MUTATED 75 1 0 4
DEL PEAK 20(9P23) WILD-TYPE 133 177 99 50

Figure S729.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

'del_9p23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S730.  Gene #70: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 20(9P23) MUTATED 43 19 9
DEL PEAK 20(9P23) WILD-TYPE 111 59 184

Figure S730.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9p23' versus 'RPPA_CNMF'

P value = 0.00033 (Fisher's exact test), Q value = 0.00046

Table S731.  Gene #70: 'del_9p23' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 20(9P23) MUTATED 3 2 4 10 20 11 12
DEL PEAK 20(9P23) WILD-TYPE 36 79 48 46 64 57 41

Figure S731.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9p23' versus 'RPPA_CHIERARCHICAL'

P value = 0.00056 (Fisher's exact test), Q value = 0.00077

Table S732.  Gene #70: 'del_9p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 20(9P23) MUTATED 4 36 15 7
DEL PEAK 20(9P23) WILD-TYPE 104 146 78 43

Figure S732.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_9p23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S733.  Gene #70: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 20(9P23) MUTATED 56 4 9 11
DEL PEAK 20(9P23) WILD-TYPE 132 119 84 122

Figure S733.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9p23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S734.  Gene #70: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 20(9P23) MUTATED 42 0 14 2 12 9 1
DEL PEAK 20(9P23) WILD-TYPE 81 53 33 63 96 57 74

Figure S734.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S735.  Gene #70: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 20(9P23) MUTATED 51 3 5 12 8
DEL PEAK 20(9P23) WILD-TYPE 113 77 101 121 39

Figure S735.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9p23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S736.  Gene #70: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 20(9P23) MUTATED 13 55 11
DEL PEAK 20(9P23) WILD-TYPE 205 117 129

Figure S736.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00403 (Fisher's exact test), Q value = 0.0051

Table S737.  Gene #70: 'del_9p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 20(9P23) MUTATED 32 10 16 11
DEL PEAK 20(9P23) WILD-TYPE 84 88 76 81

Figure S737.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9p23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0112 (Fisher's exact test), Q value = 0.013

Table S738.  Gene #70: 'del_9p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 20(9P23) MUTATED 37 13 19
DEL PEAK 20(9P23) WILD-TYPE 126 119 84

Figure S738.  Get High-res Image Gene #70: 'del_9p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q21.2' versus 'MRNA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S739.  Gene #71: 'del_9q21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 21(9Q21.2) MUTATED 0 9 0 0
DEL PEAK 21(9Q21.2) WILD-TYPE 15 8 14 7

Figure S739.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q21.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S740.  Gene #71: 'del_9q21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 21(9Q21.2) MUTATED 2 7 0 0 0
DEL PEAK 21(9Q21.2) WILD-TYPE 12 2 7 7 16

Figure S740.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9q21.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S741.  Gene #71: 'del_9q21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 21(9Q21.2) MUTATED 123 1 1 4
DEL PEAK 21(9Q21.2) WILD-TYPE 85 177 98 50

Figure S741.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_9q21.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S742.  Gene #71: 'del_9q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 21(9Q21.2) MUTATED 70 25 18
DEL PEAK 21(9Q21.2) WILD-TYPE 84 53 175

Figure S742.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q21.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S743.  Gene #71: 'del_9q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 21(9Q21.2) MUTATED 5 3 7 20 31 16 17
DEL PEAK 21(9Q21.2) WILD-TYPE 34 78 45 36 53 52 36

Figure S743.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q21.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S744.  Gene #71: 'del_9q21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 21(9Q21.2) MUTATED 7 64 20 8
DEL PEAK 21(9Q21.2) WILD-TYPE 101 118 73 42

Figure S744.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_9q21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S745.  Gene #71: 'del_9q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 21(9Q21.2) MUTATED 96 9 9 15
DEL PEAK 21(9Q21.2) WILD-TYPE 92 114 84 118

Figure S745.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9q21.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S746.  Gene #71: 'del_9q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 21(9Q21.2) MUTATED 77 0 16 3 19 13 1
DEL PEAK 21(9Q21.2) WILD-TYPE 46 53 31 62 89 53 74

Figure S746.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9q21.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S747.  Gene #71: 'del_9q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 21(9Q21.2) MUTATED 90 5 5 15 11
DEL PEAK 21(9Q21.2) WILD-TYPE 74 75 101 118 36

Figure S747.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9q21.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S748.  Gene #71: 'del_9q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 21(9Q21.2) MUTATED 30 82 14
DEL PEAK 21(9Q21.2) WILD-TYPE 188 90 126

Figure S748.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q21.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S749.  Gene #71: 'del_9q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 21(9Q21.2) MUTATED 52 15 24 19
DEL PEAK 21(9Q21.2) WILD-TYPE 64 83 68 73

Figure S749.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9q21.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.00013

Table S750.  Gene #71: 'del_9q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 21(9Q21.2) MUTATED 60 20 30
DEL PEAK 21(9Q21.2) WILD-TYPE 103 112 73

Figure S750.  Get High-res Image Gene #71: 'del_9q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q34.2' versus 'MRNA_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S751.  Gene #72: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 22(9Q34.2) MUTATED 0 9 0 0
DEL PEAK 22(9Q34.2) WILD-TYPE 15 8 14 7

Figure S751.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q34.2' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S752.  Gene #72: 'del_9q34.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 22(9Q34.2) MUTATED 2 7 0 0 0
DEL PEAK 22(9Q34.2) WILD-TYPE 12 2 7 7 16

Figure S752.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9q34.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S753.  Gene #72: 'del_9q34.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 22(9Q34.2) MUTATED 127 1 1 3
DEL PEAK 22(9Q34.2) WILD-TYPE 81 177 98 51

Figure S753.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_9q34.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S754.  Gene #72: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 22(9Q34.2) MUTATED 68 30 16
DEL PEAK 22(9Q34.2) WILD-TYPE 86 48 177

Figure S754.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q34.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S755.  Gene #72: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 22(9Q34.2) MUTATED 5 2 9 21 35 17 14
DEL PEAK 22(9Q34.2) WILD-TYPE 34 79 43 35 49 51 39

Figure S755.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q34.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S756.  Gene #72: 'del_9q34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 22(9Q34.2) MUTATED 7 64 25 7
DEL PEAK 22(9Q34.2) WILD-TYPE 101 118 68 43

Figure S756.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_9q34.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S757.  Gene #72: 'del_9q34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 22(9Q34.2) MUTATED 97 9 11 14
DEL PEAK 22(9Q34.2) WILD-TYPE 91 114 82 119

Figure S757.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9q34.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S758.  Gene #72: 'del_9q34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 22(9Q34.2) MUTATED 75 0 16 3 22 14 1
DEL PEAK 22(9Q34.2) WILD-TYPE 48 53 31 62 86 52 74

Figure S758.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9q34.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S759.  Gene #72: 'del_9q34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 22(9Q34.2) MUTATED 90 6 6 16 11
DEL PEAK 22(9Q34.2) WILD-TYPE 74 74 100 117 36

Figure S759.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9q34.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S760.  Gene #72: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 22(9Q34.2) MUTATED 34 81 14
DEL PEAK 22(9Q34.2) WILD-TYPE 184 91 126

Figure S760.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q34.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00017 (Fisher's exact test), Q value = 0.00025

Table S761.  Gene #72: 'del_9q34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 22(9Q34.2) MUTATED 50 16 22 23
DEL PEAK 22(9Q34.2) WILD-TYPE 66 82 70 69

Figure S761.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9q34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S762.  Gene #72: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 22(9Q34.2) MUTATED 63 20 28
DEL PEAK 22(9Q34.2) WILD-TYPE 100 112 75

Figure S762.  Get High-res Image Gene #72: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10q21.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S763.  Gene #73: 'del_10q21.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 23(10Q21.1) MUTATED 49 0 0 1
DEL PEAK 23(10Q21.1) WILD-TYPE 159 178 99 53

Figure S763.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_10q21.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S764.  Gene #73: 'del_10q21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 23(10Q21.1) MUTATED 33 13 2
DEL PEAK 23(10Q21.1) WILD-TYPE 121 65 191

Figure S764.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_10q21.1' versus 'RPPA_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.00011

Table S765.  Gene #73: 'del_10q21.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 23(10Q21.1) MUTATED 0 1 2 9 17 8 5
DEL PEAK 23(10Q21.1) WILD-TYPE 39 80 50 47 67 60 48

Figure S765.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_10q21.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S766.  Gene #73: 'del_10q21.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 23(10Q21.1) MUTATED 0 30 10 2
DEL PEAK 23(10Q21.1) WILD-TYPE 108 152 83 48

Figure S766.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_10q21.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S767.  Gene #73: 'del_10q21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 23(10Q21.1) MUTATED 42 1 4 3
DEL PEAK 23(10Q21.1) WILD-TYPE 146 122 89 130

Figure S767.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_10q21.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S768.  Gene #73: 'del_10q21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 23(10Q21.1) MUTATED 36 0 3 1 7 3 0
DEL PEAK 23(10Q21.1) WILD-TYPE 87 53 44 64 101 63 75

Figure S768.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_10q21.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S769.  Gene #73: 'del_10q21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 23(10Q21.1) MUTATED 41 2 1 2 4
DEL PEAK 23(10Q21.1) WILD-TYPE 123 78 105 131 43

Figure S769.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_10q21.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S770.  Gene #73: 'del_10q21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 23(10Q21.1) MUTATED 9 38 3
DEL PEAK 23(10Q21.1) WILD-TYPE 209 134 137

Figure S770.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_10q21.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S771.  Gene #73: 'del_10q21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 23(10Q21.1) MUTATED 29 3 7 8
DEL PEAK 23(10Q21.1) WILD-TYPE 87 95 85 84

Figure S771.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_10q21.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S772.  Gene #73: 'del_10q21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 23(10Q21.1) MUTATED 31 3 13
DEL PEAK 23(10Q21.1) WILD-TYPE 132 129 90

Figure S772.  Get High-res Image Gene #73: 'del_10q21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10q23.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S773.  Gene #74: 'del_10q23.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 24(10Q23.31) MUTATED 72 0 2 4
DEL PEAK 24(10Q23.31) WILD-TYPE 136 178 97 50

Figure S773.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_10q23.31' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S774.  Gene #74: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 24(10Q23.31) MUTATED 40 22 7
DEL PEAK 24(10Q23.31) WILD-TYPE 114 56 186

Figure S774.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_10q23.31' versus 'RPPA_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S775.  Gene #74: 'del_10q23.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 24(10Q23.31) MUTATED 3 1 6 11 22 11 8
DEL PEAK 24(10Q23.31) WILD-TYPE 36 80 46 45 62 57 45

Figure S775.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_10q23.31' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S776.  Gene #74: 'del_10q23.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 24(10Q23.31) MUTATED 3 40 14 5
DEL PEAK 24(10Q23.31) WILD-TYPE 105 142 79 45

Figure S776.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_10q23.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S777.  Gene #74: 'del_10q23.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 24(10Q23.31) MUTATED 59 2 9 7
DEL PEAK 24(10Q23.31) WILD-TYPE 129 121 84 126

Figure S777.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_10q23.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S778.  Gene #74: 'del_10q23.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 24(10Q23.31) MUTATED 48 0 7 3 12 5 2
DEL PEAK 24(10Q23.31) WILD-TYPE 75 53 40 62 96 61 73

Figure S778.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_10q23.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S779.  Gene #74: 'del_10q23.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 24(10Q23.31) MUTATED 54 4 5 6 8
DEL PEAK 24(10Q23.31) WILD-TYPE 110 76 101 127 39

Figure S779.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_10q23.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S780.  Gene #74: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 24(10Q23.31) MUTATED 18 52 7
DEL PEAK 24(10Q23.31) WILD-TYPE 200 120 133

Figure S780.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_10q23.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S781.  Gene #74: 'del_10q23.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 24(10Q23.31) MUTATED 33 6 12 17
DEL PEAK 24(10Q23.31) WILD-TYPE 83 92 80 75

Figure S781.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_10q23.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S782.  Gene #74: 'del_10q23.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 24(10Q23.31) MUTATED 40 8 20
DEL PEAK 24(10Q23.31) WILD-TYPE 123 124 83

Figure S782.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_11p15.5' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S783.  Gene #75: 'del_11p15.5' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 25(11P15.5) MUTATED 99 1 0 4
DEL PEAK 25(11P15.5) WILD-TYPE 109 177 99 50

Figure S783.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #3: 'CN_CNMF'

'del_11p15.5' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S784.  Gene #75: 'del_11p15.5' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 25(11P15.5) MUTATED 59 28 8
DEL PEAK 25(11P15.5) WILD-TYPE 95 50 185

Figure S784.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11p15.5' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S785.  Gene #75: 'del_11p15.5' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 25(11P15.5) MUTATED 3 2 6 16 32 10 10
DEL PEAK 25(11P15.5) WILD-TYPE 36 79 46 40 52 58 43

Figure S785.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_11p15.5' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S786.  Gene #75: 'del_11p15.5' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 25(11P15.5) MUTATED 5 54 13 7
DEL PEAK 25(11P15.5) WILD-TYPE 103 128 80 43

Figure S786.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_11p15.5' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S787.  Gene #75: 'del_11p15.5' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 25(11P15.5) MUTATED 78 5 10 10
DEL PEAK 25(11P15.5) WILD-TYPE 110 118 83 123

Figure S787.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_11p15.5' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S788.  Gene #75: 'del_11p15.5' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 25(11P15.5) MUTATED 58 1 18 0 15 9 2
DEL PEAK 25(11P15.5) WILD-TYPE 65 52 29 65 93 57 73

Figure S788.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_11p15.5' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S789.  Gene #75: 'del_11p15.5' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 25(11P15.5) MUTATED 74 4 4 13 8
DEL PEAK 25(11P15.5) WILD-TYPE 90 76 102 120 39

Figure S789.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_11p15.5' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S790.  Gene #75: 'del_11p15.5' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 25(11P15.5) MUTATED 20 72 11
DEL PEAK 25(11P15.5) WILD-TYPE 198 100 129

Figure S790.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_11p15.5' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S791.  Gene #75: 'del_11p15.5' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 25(11P15.5) MUTATED 50 10 15 20
DEL PEAK 25(11P15.5) WILD-TYPE 66 88 77 72

Figure S791.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_11p15.5' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S792.  Gene #75: 'del_11p15.5' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 25(11P15.5) MUTATED 60 14 21
DEL PEAK 25(11P15.5) WILD-TYPE 103 118 82

Figure S792.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_11q14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S793.  Gene #76: 'del_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 26(11Q14.1) MUTATED 65 0 0 4
DEL PEAK 26(11Q14.1) WILD-TYPE 143 178 99 50

Figure S793.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_11q14.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S794.  Gene #76: 'del_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 26(11Q14.1) MUTATED 42 17 6
DEL PEAK 26(11Q14.1) WILD-TYPE 112 61 187

Figure S794.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11q14.1' versus 'RPPA_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 7.7e-05

Table S795.  Gene #76: 'del_11q14.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 26(11Q14.1) MUTATED 3 2 4 12 23 8 4
DEL PEAK 26(11Q14.1) WILD-TYPE 36 79 48 44 61 60 49

Figure S795.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_11q14.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S796.  Gene #76: 'del_11q14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 26(11Q14.1) MUTATED 3 44 7 2
DEL PEAK 26(11Q14.1) WILD-TYPE 105 138 86 48

Figure S796.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_11q14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S797.  Gene #76: 'del_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 26(11Q14.1) MUTATED 53 3 6 6
DEL PEAK 26(11Q14.1) WILD-TYPE 135 120 87 127

Figure S797.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_11q14.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S798.  Gene #76: 'del_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 26(11Q14.1) MUTATED 42 1 12 1 8 4 0
DEL PEAK 26(11Q14.1) WILD-TYPE 81 52 35 64 100 62 75

Figure S798.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_11q14.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S799.  Gene #76: 'del_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 26(11Q14.1) MUTATED 53 3 2 8 3
DEL PEAK 26(11Q14.1) WILD-TYPE 111 77 104 125 44

Figure S799.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_11q14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S800.  Gene #76: 'del_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 26(11Q14.1) MUTATED 10 52 7
DEL PEAK 26(11Q14.1) WILD-TYPE 208 120 133

Figure S800.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_11q14.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.00016

Table S801.  Gene #76: 'del_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 26(11Q14.1) MUTATED 34 7 9 14
DEL PEAK 26(11Q14.1) WILD-TYPE 82 91 83 78

Figure S801.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_11q14.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S802.  Gene #76: 'del_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 26(11Q14.1) MUTATED 44 7 13
DEL PEAK 26(11Q14.1) WILD-TYPE 119 125 90

Figure S802.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_11q25' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S803.  Gene #77: 'del_11q25' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 27(11Q25) MUTATED 89 2 0 3
DEL PEAK 27(11Q25) WILD-TYPE 119 176 99 51

Figure S803.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #3: 'CN_CNMF'

'del_11q25' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S804.  Gene #77: 'del_11q25' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 27(11Q25) MUTATED 58 19 8
DEL PEAK 27(11Q25) WILD-TYPE 96 59 185

Figure S804.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11q25' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S805.  Gene #77: 'del_11q25' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 27(11Q25) MUTATED 4 3 9 15 31 9 7
DEL PEAK 27(11Q25) WILD-TYPE 35 78 43 41 53 59 46

Figure S805.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_11q25' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S806.  Gene #77: 'del_11q25' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 27(11Q25) MUTATED 5 55 15 3
DEL PEAK 27(11Q25) WILD-TYPE 103 127 78 47

Figure S806.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_11q25' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S807.  Gene #77: 'del_11q25' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 27(11Q25) MUTATED 68 6 10 9
DEL PEAK 27(11Q25) WILD-TYPE 120 117 83 124

Figure S807.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_11q25' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S808.  Gene #77: 'del_11q25' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 27(11Q25) MUTATED 53 1 14 2 16 6 1
DEL PEAK 27(11Q25) WILD-TYPE 70 52 33 63 92 60 74

Figure S808.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_11q25' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S809.  Gene #77: 'del_11q25' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 27(11Q25) MUTATED 62 7 5 11 7
DEL PEAK 27(11Q25) WILD-TYPE 102 73 101 122 40

Figure S809.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_11q25' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S810.  Gene #77: 'del_11q25' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 27(11Q25) MUTATED 20 64 8
DEL PEAK 27(11Q25) WILD-TYPE 198 108 132

Figure S810.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_11q25' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00028 (Fisher's exact test), Q value = 4e-04

Table S811.  Gene #77: 'del_11q25' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 27(11Q25) MUTATED 39 10 15 19
DEL PEAK 27(11Q25) WILD-TYPE 77 88 77 73

Figure S811.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_11q25' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S812.  Gene #77: 'del_11q25' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 27(11Q25) MUTATED 51 11 21
DEL PEAK 27(11Q25) WILD-TYPE 112 121 82

Figure S812.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_12q23.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S813.  Gene #78: 'del_12q23.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 28(12Q23.1) MUTATED 55 0 0 1
DEL PEAK 28(12Q23.1) WILD-TYPE 153 178 99 53

Figure S813.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_12q23.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S814.  Gene #78: 'del_12q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 28(12Q23.1) MUTATED 33 13 2
DEL PEAK 28(12Q23.1) WILD-TYPE 121 65 191

Figure S814.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_12q23.1' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S815.  Gene #78: 'del_12q23.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 28(12Q23.1) MUTATED 1 0 3 8 16 9 11
DEL PEAK 28(12Q23.1) WILD-TYPE 38 81 49 48 68 59 42

Figure S815.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_12q23.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S816.  Gene #78: 'del_12q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 28(12Q23.1) MUTATED 0 32 10 6
DEL PEAK 28(12Q23.1) WILD-TYPE 108 150 83 44

Figure S816.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_12q23.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S817.  Gene #78: 'del_12q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 28(12Q23.1) MUTATED 47 1 5 3
DEL PEAK 28(12Q23.1) WILD-TYPE 141 122 88 130

Figure S817.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_12q23.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S818.  Gene #78: 'del_12q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 28(12Q23.1) MUTATED 39 0 9 0 3 5 0
DEL PEAK 28(12Q23.1) WILD-TYPE 84 53 38 65 105 61 75

Figure S818.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_12q23.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S819.  Gene #78: 'del_12q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 28(12Q23.1) MUTATED 36 4 4 2 8
DEL PEAK 28(12Q23.1) WILD-TYPE 128 76 102 131 39

Figure S819.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_12q23.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S820.  Gene #78: 'del_12q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 28(12Q23.1) MUTATED 10 44 0
DEL PEAK 28(12Q23.1) WILD-TYPE 208 128 140

Figure S820.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_12q23.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S821.  Gene #78: 'del_12q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 28(12Q23.1) MUTATED 27 2 8 10
DEL PEAK 28(12Q23.1) WILD-TYPE 89 96 84 82

Figure S821.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_12q23.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S822.  Gene #78: 'del_12q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 28(12Q23.1) MUTATED 29 2 16
DEL PEAK 28(12Q23.1) WILD-TYPE 134 130 87

Figure S822.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_12q24.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S823.  Gene #79: 'del_12q24.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 29(12Q24.33) MUTATED 64 0 0 2
DEL PEAK 29(12Q24.33) WILD-TYPE 144 178 99 52

Figure S823.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #3: 'CN_CNMF'

'del_12q24.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S824.  Gene #79: 'del_12q24.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 29(12Q24.33) MUTATED 42 15 4
DEL PEAK 29(12Q24.33) WILD-TYPE 112 63 189

Figure S824.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_12q24.33' versus 'RPPA_CNMF'

P value = 9e-05 (Fisher's exact test), Q value = 0.00013

Table S825.  Gene #79: 'del_12q24.33' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 29(12Q24.33) MUTATED 1 1 4 9 19 9 10
DEL PEAK 29(12Q24.33) WILD-TYPE 38 80 48 47 65 59 43

Figure S825.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_12q24.33' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S826.  Gene #79: 'del_12q24.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 29(12Q24.33) MUTATED 0 36 12 5
DEL PEAK 29(12Q24.33) WILD-TYPE 108 146 81 45

Figure S826.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_12q24.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S827.  Gene #79: 'del_12q24.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 29(12Q24.33) MUTATED 59 0 4 3
DEL PEAK 29(12Q24.33) WILD-TYPE 129 123 89 130

Figure S827.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_12q24.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S828.  Gene #79: 'del_12q24.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 29(12Q24.33) MUTATED 45 0 8 0 9 4 0
DEL PEAK 29(12Q24.33) WILD-TYPE 78 53 39 65 99 62 75

Figure S828.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_12q24.33' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S829.  Gene #79: 'del_12q24.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 29(12Q24.33) MUTATED 48 3 3 3 7
DEL PEAK 29(12Q24.33) WILD-TYPE 116 77 103 130 40

Figure S829.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_12q24.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S830.  Gene #79: 'del_12q24.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 29(12Q24.33) MUTATED 13 49 2
DEL PEAK 29(12Q24.33) WILD-TYPE 205 123 138

Figure S830.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_12q24.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S831.  Gene #79: 'del_12q24.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 29(12Q24.33) MUTATED 33 3 9 14
DEL PEAK 29(12Q24.33) WILD-TYPE 83 95 83 78

Figure S831.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_12q24.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S832.  Gene #79: 'del_12q24.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 29(12Q24.33) MUTATED 36 5 18
DEL PEAK 29(12Q24.33) WILD-TYPE 127 127 85

Figure S832.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_13q11' versus 'MRNA_CHIERARCHICAL'

P value = 0.0395 (Fisher's exact test), Q value = 0.045

Table S833.  Gene #80: 'del_13q11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 30(13Q11) MUTATED 3 3 0 0 0
DEL PEAK 30(13Q11) WILD-TYPE 11 6 7 7 16

Figure S833.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_13q11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S834.  Gene #80: 'del_13q11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 30(13Q11) MUTATED 94 1 2 1
DEL PEAK 30(13Q11) WILD-TYPE 114 177 97 53

Figure S834.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #3: 'CN_CNMF'

'del_13q11' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S835.  Gene #80: 'del_13q11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 30(13Q11) MUTATED 53 18 13
DEL PEAK 30(13Q11) WILD-TYPE 101 60 180

Figure S835.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_13q11' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S836.  Gene #80: 'del_13q11' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 30(13Q11) MUTATED 3 2 5 17 24 9 14
DEL PEAK 30(13Q11) WILD-TYPE 36 79 47 39 60 59 39

Figure S836.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_13q11' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S837.  Gene #80: 'del_13q11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 30(13Q11) MUTATED 4 45 17 8
DEL PEAK 30(13Q11) WILD-TYPE 104 137 76 42

Figure S837.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_13q11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S838.  Gene #80: 'del_13q11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 30(13Q11) MUTATED 70 10 5 13
DEL PEAK 30(13Q11) WILD-TYPE 118 113 88 120

Figure S838.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_13q11' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S839.  Gene #80: 'del_13q11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 30(13Q11) MUTATED 52 1 11 0 21 12 1
DEL PEAK 30(13Q11) WILD-TYPE 71 52 36 65 87 54 74

Figure S839.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_13q11' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S840.  Gene #80: 'del_13q11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 30(13Q11) MUTATED 61 8 6 13 9
DEL PEAK 30(13Q11) WILD-TYPE 103 72 100 120 38

Figure S840.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_13q11' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S841.  Gene #80: 'del_13q11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 30(13Q11) MUTATED 28 58 11
DEL PEAK 30(13Q11) WILD-TYPE 190 114 129

Figure S841.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_13q11' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00452 (Fisher's exact test), Q value = 0.0057

Table S842.  Gene #80: 'del_13q11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 30(13Q11) MUTATED 37 14 19 13
DEL PEAK 30(13Q11) WILD-TYPE 79 84 73 79

Figure S842.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_13q11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00661 (Fisher's exact test), Q value = 0.0081

Table S843.  Gene #80: 'del_13q11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 30(13Q11) MUTATED 39 16 28
DEL PEAK 30(13Q11) WILD-TYPE 124 116 75

Figure S843.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_13q14.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S844.  Gene #81: 'del_13q14.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 31(13Q14.2) MUTATED 100 3 1 2
DEL PEAK 31(13Q14.2) WILD-TYPE 108 175 98 52

Figure S844.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_13q14.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S845.  Gene #81: 'del_13q14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 31(13Q14.2) MUTATED 54 22 17
DEL PEAK 31(13Q14.2) WILD-TYPE 100 56 176

Figure S845.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_13q14.2' versus 'RPPA_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S846.  Gene #81: 'del_13q14.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 31(13Q14.2) MUTATED 4 5 6 18 28 9 13
DEL PEAK 31(13Q14.2) WILD-TYPE 35 76 46 38 56 59 40

Figure S846.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_13q14.2' versus 'RPPA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S847.  Gene #81: 'del_13q14.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 31(13Q14.2) MUTATED 6 50 18 9
DEL PEAK 31(13Q14.2) WILD-TYPE 102 132 75 41

Figure S847.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_13q14.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S848.  Gene #81: 'del_13q14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 31(13Q14.2) MUTATED 71 12 7 16
DEL PEAK 31(13Q14.2) WILD-TYPE 117 111 86 117

Figure S848.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_13q14.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S849.  Gene #81: 'del_13q14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 31(13Q14.2) MUTATED 47 3 15 0 25 14 2
DEL PEAK 31(13Q14.2) WILD-TYPE 76 50 32 65 83 52 73

Figure S849.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_13q14.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S850.  Gene #81: 'del_13q14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 31(13Q14.2) MUTATED 65 11 6 17 6
DEL PEAK 31(13Q14.2) WILD-TYPE 99 69 100 116 41

Figure S850.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_13q14.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S851.  Gene #81: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 31(13Q14.2) MUTATED 32 59 14
DEL PEAK 31(13Q14.2) WILD-TYPE 186 113 126

Figure S851.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_13q14.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0224 (Fisher's exact test), Q value = 0.026

Table S852.  Gene #81: 'del_13q14.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 31(13Q14.2) MUTATED 39 18 20 16
DEL PEAK 31(13Q14.2) WILD-TYPE 77 80 72 76

Figure S852.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_13q14.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0166 (Fisher's exact test), Q value = 0.019

Table S853.  Gene #81: 'del_13q14.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 31(13Q14.2) MUTATED 47 20 26
DEL PEAK 31(13Q14.2) WILD-TYPE 116 112 77

Figure S853.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_14q13.1' versus 'MRNA_CNMF'

P value = 0.00858 (Fisher's exact test), Q value = 0.01

Table S854.  Gene #82: 'del_14q13.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 32(14Q13.1) MUTATED 0 5 0 0
DEL PEAK 32(14Q13.1) WILD-TYPE 15 12 14 7

Figure S854.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_14q13.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.0052 (Fisher's exact test), Q value = 0.0065

Table S855.  Gene #82: 'del_14q13.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 32(14Q13.1) MUTATED 1 4 0 0 0
DEL PEAK 32(14Q13.1) WILD-TYPE 13 5 7 7 16

Figure S855.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_14q13.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S856.  Gene #82: 'del_14q13.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 32(14Q13.1) MUTATED 69 2 0 2
DEL PEAK 32(14Q13.1) WILD-TYPE 139 176 99 52

Figure S856.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_14q13.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S857.  Gene #82: 'del_14q13.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 32(14Q13.1) MUTATED 44 15 5
DEL PEAK 32(14Q13.1) WILD-TYPE 110 63 188

Figure S857.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_14q13.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S858.  Gene #82: 'del_14q13.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 32(14Q13.1) MUTATED 1 1 3 7 23 9 11
DEL PEAK 32(14Q13.1) WILD-TYPE 38 80 49 49 61 59 42

Figure S858.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_14q13.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S859.  Gene #82: 'del_14q13.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 32(14Q13.1) MUTATED 1 39 8 7
DEL PEAK 32(14Q13.1) WILD-TYPE 107 143 85 43

Figure S859.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_14q13.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S860.  Gene #82: 'del_14q13.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 32(14Q13.1) MUTATED 57 4 5 6
DEL PEAK 32(14Q13.1) WILD-TYPE 131 119 88 127

Figure S860.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_14q13.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S861.  Gene #82: 'del_14q13.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 32(14Q13.1) MUTATED 50 1 5 1 9 5 1
DEL PEAK 32(14Q13.1) WILD-TYPE 73 52 42 64 99 61 74

Figure S861.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_14q13.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S862.  Gene #82: 'del_14q13.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 32(14Q13.1) MUTATED 50 6 6 4 6
DEL PEAK 32(14Q13.1) WILD-TYPE 114 74 100 129 41

Figure S862.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_14q13.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S863.  Gene #82: 'del_14q13.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 32(14Q13.1) MUTATED 14 54 4
DEL PEAK 32(14Q13.1) WILD-TYPE 204 118 136

Figure S863.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_14q13.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00067 (Fisher's exact test), Q value = 0.00091

Table S864.  Gene #82: 'del_14q13.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 32(14Q13.1) MUTATED 29 5 16 14
DEL PEAK 32(14Q13.1) WILD-TYPE 87 93 76 78

Figure S864.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_14q13.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-04 (Fisher's exact test), Q value = 0.00029

Table S865.  Gene #82: 'del_14q13.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 32(14Q13.1) MUTATED 38 8 18
DEL PEAK 32(14Q13.1) WILD-TYPE 125 124 85

Figure S865.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_15q15.1' versus 'MRNA_CNMF'

P value = 0.0432 (Fisher's exact test), Q value = 0.049

Table S866.  Gene #83: 'del_15q15.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 33(15Q15.1) MUTATED 1 5 0 0
DEL PEAK 33(15Q15.1) WILD-TYPE 14 12 14 7

Figure S866.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_15q15.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.0108 (Fisher's exact test), Q value = 0.013

Table S867.  Gene #83: 'del_15q15.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 33(15Q15.1) MUTATED 1 4 0 1 0
DEL PEAK 33(15Q15.1) WILD-TYPE 13 5 7 6 16

Figure S867.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_15q15.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S868.  Gene #83: 'del_15q15.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 33(15Q15.1) MUTATED 133 1 2 4
DEL PEAK 33(15Q15.1) WILD-TYPE 75 177 97 50

Figure S868.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_15q15.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S869.  Gene #83: 'del_15q15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 33(15Q15.1) MUTATED 76 35 14
DEL PEAK 33(15Q15.1) WILD-TYPE 78 43 179

Figure S869.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_15q15.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S870.  Gene #83: 'del_15q15.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 33(15Q15.1) MUTATED 6 2 7 22 38 16 20
DEL PEAK 33(15Q15.1) WILD-TYPE 33 79 45 34 46 52 33

Figure S870.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_15q15.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S871.  Gene #83: 'del_15q15.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 33(15Q15.1) MUTATED 6 71 23 11
DEL PEAK 33(15Q15.1) WILD-TYPE 102 111 70 39

Figure S871.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_15q15.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S872.  Gene #83: 'del_15q15.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 33(15Q15.1) MUTATED 112 10 9 9
DEL PEAK 33(15Q15.1) WILD-TYPE 76 113 84 124

Figure S872.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_15q15.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S873.  Gene #83: 'del_15q15.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 33(15Q15.1) MUTATED 86 1 14 4 25 9 1
DEL PEAK 33(15Q15.1) WILD-TYPE 37 52 33 61 83 57 74

Figure S873.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_15q15.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S874.  Gene #83: 'del_15q15.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 33(15Q15.1) MUTATED 98 8 6 11 15
DEL PEAK 33(15Q15.1) WILD-TYPE 66 72 100 122 32

Figure S874.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_15q15.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S875.  Gene #83: 'del_15q15.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 33(15Q15.1) MUTATED 35 94 9
DEL PEAK 33(15Q15.1) WILD-TYPE 183 78 131

Figure S875.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_15q15.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S876.  Gene #83: 'del_15q15.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 33(15Q15.1) MUTATED 60 11 29 22
DEL PEAK 33(15Q15.1) WILD-TYPE 56 87 63 70

Figure S876.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_15q15.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S877.  Gene #83: 'del_15q15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 33(15Q15.1) MUTATED 68 16 38
DEL PEAK 33(15Q15.1) WILD-TYPE 95 116 65

Figure S877.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_15q23' versus 'MRNA_CNMF'

P value = 0.00255 (Fisher's exact test), Q value = 0.0033

Table S878.  Gene #84: 'del_15q23' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 34(15Q23) MUTATED 0 6 0 0
DEL PEAK 34(15Q23) WILD-TYPE 15 11 14 7

Figure S878.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_15q23' versus 'MRNA_CHIERARCHICAL'

P value = 0.00052 (Fisher's exact test), Q value = 0.00072

Table S879.  Gene #84: 'del_15q23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 34(15Q23) MUTATED 1 5 0 0 0
DEL PEAK 34(15Q23) WILD-TYPE 13 4 7 7 16

Figure S879.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_15q23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S880.  Gene #84: 'del_15q23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 34(15Q23) MUTATED 110 0 2 3
DEL PEAK 34(15Q23) WILD-TYPE 98 178 97 51

Figure S880.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #3: 'CN_CNMF'

'del_15q23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S881.  Gene #84: 'del_15q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 34(15Q23) MUTATED 67 24 10
DEL PEAK 34(15Q23) WILD-TYPE 87 54 183

Figure S881.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_15q23' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S882.  Gene #84: 'del_15q23' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 34(15Q23) MUTATED 4 3 7 15 33 15 14
DEL PEAK 34(15Q23) WILD-TYPE 35 78 45 41 51 53 39

Figure S882.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_15q23' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S883.  Gene #84: 'del_15q23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 34(15Q23) MUTATED 4 57 20 10
DEL PEAK 34(15Q23) WILD-TYPE 104 125 73 40

Figure S883.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_15q23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S884.  Gene #84: 'del_15q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 34(15Q23) MUTATED 92 11 6 6
DEL PEAK 34(15Q23) WILD-TYPE 96 112 87 127

Figure S884.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_15q23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S885.  Gene #84: 'del_15q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 34(15Q23) MUTATED 75 1 12 2 17 7 1
DEL PEAK 34(15Q23) WILD-TYPE 48 52 35 63 91 59 74

Figure S885.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_15q23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S886.  Gene #84: 'del_15q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 34(15Q23) MUTATED 81 8 4 9 11
DEL PEAK 34(15Q23) WILD-TYPE 83 72 102 124 36

Figure S886.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_15q23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S887.  Gene #84: 'del_15q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 34(15Q23) MUTATED 30 77 6
DEL PEAK 34(15Q23) WILD-TYPE 188 95 134

Figure S887.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_15q23' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S888.  Gene #84: 'del_15q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 34(15Q23) MUTATED 51 8 20 19
DEL PEAK 34(15Q23) WILD-TYPE 65 90 72 73

Figure S888.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_15q23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S889.  Gene #84: 'del_15q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 34(15Q23) MUTATED 60 9 29
DEL PEAK 34(15Q23) WILD-TYPE 103 123 74

Figure S889.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16p13.3' versus 'MRNA_CNMF'

P value = 0.011 (Fisher's exact test), Q value = 0.013

Table S890.  Gene #85: 'del_16p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 35(16P13.3) MUTATED 1 6 0 0
DEL PEAK 35(16P13.3) WILD-TYPE 14 11 14 7

Figure S890.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_16p13.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00968 (Fisher's exact test), Q value = 0.012

Table S891.  Gene #85: 'del_16p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 35(16P13.3) MUTATED 3 4 0 0 0
DEL PEAK 35(16P13.3) WILD-TYPE 11 5 7 7 16

Figure S891.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_16p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S892.  Gene #85: 'del_16p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 35(16P13.3) MUTATED 90 0 1 1
DEL PEAK 35(16P13.3) WILD-TYPE 118 178 98 53

Figure S892.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_16p13.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S893.  Gene #85: 'del_16p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 35(16P13.3) MUTATED 52 26 5
DEL PEAK 35(16P13.3) WILD-TYPE 102 52 188

Figure S893.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16p13.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S894.  Gene #85: 'del_16p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 35(16P13.3) MUTATED 2 2 4 15 29 11 13
DEL PEAK 35(16P13.3) WILD-TYPE 37 79 48 41 55 57 40

Figure S894.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_16p13.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S895.  Gene #85: 'del_16p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 35(16P13.3) MUTATED 1 53 15 7
DEL PEAK 35(16P13.3) WILD-TYPE 107 129 78 43

Figure S895.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_16p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S896.  Gene #85: 'del_16p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 35(16P13.3) MUTATED 79 4 2 7
DEL PEAK 35(16P13.3) WILD-TYPE 109 119 91 126

Figure S896.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_16p13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S897.  Gene #85: 'del_16p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 35(16P13.3) MUTATED 63 1 9 1 11 6 1
DEL PEAK 35(16P13.3) WILD-TYPE 60 52 38 64 97 60 74

Figure S897.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_16p13.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S898.  Gene #85: 'del_16p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 35(16P13.3) MUTATED 66 4 5 7 8
DEL PEAK 35(16P13.3) WILD-TYPE 98 76 101 126 39

Figure S898.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_16p13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S899.  Gene #85: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 35(16P13.3) MUTATED 17 68 5
DEL PEAK 35(16P13.3) WILD-TYPE 201 104 135

Figure S899.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16p13.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S900.  Gene #85: 'del_16p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 35(16P13.3) MUTATED 43 8 18 13
DEL PEAK 35(16P13.3) WILD-TYPE 73 90 74 79

Figure S900.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_16p13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S901.  Gene #85: 'del_16p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 35(16P13.3) MUTATED 48 8 26
DEL PEAK 35(16P13.3) WILD-TYPE 115 124 77

Figure S901.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q21' versus 'MRNA_CNMF'

P value = 0.00104 (Fisher's exact test), Q value = 0.0014

Table S902.  Gene #86: 'del_16q21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 36(16Q21) MUTATED 0 8 1 0
DEL PEAK 36(16Q21) WILD-TYPE 15 9 13 7

Figure S902.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_16q21' versus 'MRNA_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S903.  Gene #86: 'del_16q21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 36(16Q21) MUTATED 1 7 0 0 1
DEL PEAK 36(16Q21) WILD-TYPE 13 2 7 7 15

Figure S903.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_16q21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S904.  Gene #86: 'del_16q21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 36(16Q21) MUTATED 139 3 9 3
DEL PEAK 36(16Q21) WILD-TYPE 69 175 90 51

Figure S904.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #3: 'CN_CNMF'

'del_16q21' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S905.  Gene #86: 'del_16q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 36(16Q21) MUTATED 80 37 18
DEL PEAK 36(16Q21) WILD-TYPE 74 41 175

Figure S905.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S906.  Gene #86: 'del_16q21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 36(16Q21) MUTATED 4 7 10 22 45 18 18
DEL PEAK 36(16Q21) WILD-TYPE 35 74 42 34 39 50 35

Figure S906.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_16q21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S907.  Gene #86: 'del_16q21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 36(16Q21) MUTATED 10 81 22 11
DEL PEAK 36(16Q21) WILD-TYPE 98 101 71 39

Figure S907.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_16q21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S908.  Gene #86: 'del_16q21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 36(16Q21) MUTATED 113 15 11 14
DEL PEAK 36(16Q21) WILD-TYPE 75 108 82 119

Figure S908.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_16q21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S909.  Gene #86: 'del_16q21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 36(16Q21) MUTATED 89 7 17 3 22 11 4
DEL PEAK 36(16Q21) WILD-TYPE 34 46 30 62 86 55 71

Figure S909.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_16q21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S910.  Gene #86: 'del_16q21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 36(16Q21) MUTATED 96 13 13 15 13
DEL PEAK 36(16Q21) WILD-TYPE 68 67 93 118 34

Figure S910.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_16q21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S911.  Gene #86: 'del_16q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 36(16Q21) MUTATED 38 98 14
DEL PEAK 36(16Q21) WILD-TYPE 180 74 126

Figure S911.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q21' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S912.  Gene #86: 'del_16q21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 36(16Q21) MUTATED 55 16 29 31
DEL PEAK 36(16Q21) WILD-TYPE 61 82 63 61

Figure S912.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_16q21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S913.  Gene #86: 'del_16q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 36(16Q21) MUTATED 70 22 39
DEL PEAK 36(16Q21) WILD-TYPE 93 110 64

Figure S913.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q22.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.0102 (Fisher's exact test), Q value = 0.012

Table S914.  Gene #87: 'del_16q22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 37(16Q22.3) MUTATED 4 5 0 0 1
DEL PEAK 37(16Q22.3) WILD-TYPE 10 4 7 7 15

Figure S914.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_16q22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S915.  Gene #87: 'del_16q22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 37(16Q22.3) MUTATED 140 3 12 3
DEL PEAK 37(16Q22.3) WILD-TYPE 68 175 87 51

Figure S915.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_16q22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S916.  Gene #87: 'del_16q22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 37(16Q22.3) MUTATED 78 39 21
DEL PEAK 37(16Q22.3) WILD-TYPE 76 39 172

Figure S916.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q22.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S917.  Gene #87: 'del_16q22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 37(16Q22.3) MUTATED 5 7 9 27 42 17 16
DEL PEAK 37(16Q22.3) WILD-TYPE 34 74 43 29 42 51 37

Figure S917.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_16q22.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S918.  Gene #87: 'del_16q22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 37(16Q22.3) MUTATED 13 78 22 10
DEL PEAK 37(16Q22.3) WILD-TYPE 95 104 71 40

Figure S918.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_16q22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S919.  Gene #87: 'del_16q22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 37(16Q22.3) MUTATED 114 16 12 16
DEL PEAK 37(16Q22.3) WILD-TYPE 74 107 81 117

Figure S919.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_16q22.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S920.  Gene #87: 'del_16q22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 37(16Q22.3) MUTATED 88 8 18 3 24 12 5
DEL PEAK 37(16Q22.3) WILD-TYPE 35 45 29 62 84 54 70

Figure S920.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_16q22.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S921.  Gene #87: 'del_16q22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 37(16Q22.3) MUTATED 94 14 14 17 15
DEL PEAK 37(16Q22.3) WILD-TYPE 70 66 92 116 32

Figure S921.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_16q22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S922.  Gene #87: 'del_16q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 37(16Q22.3) MUTATED 39 99 16
DEL PEAK 37(16Q22.3) WILD-TYPE 179 73 124

Figure S922.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S923.  Gene #87: 'del_16q22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 37(16Q22.3) MUTATED 55 17 31 31
DEL PEAK 37(16Q22.3) WILD-TYPE 61 81 61 61

Figure S923.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_16q22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S924.  Gene #87: 'del_16q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 37(16Q22.3) MUTATED 69 22 43
DEL PEAK 37(16Q22.3) WILD-TYPE 94 110 60

Figure S924.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q23.1' versus 'MRNA_CNMF'

P value = 0.00484 (Fisher's exact test), Q value = 0.006

Table S925.  Gene #88: 'del_16q23.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 38(16Q23.1) MUTATED 1 9 2 0
DEL PEAK 38(16Q23.1) WILD-TYPE 14 8 12 7

Figure S925.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_16q23.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00019 (Fisher's exact test), Q value = 0.00027

Table S926.  Gene #88: 'del_16q23.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 38(16Q23.1) MUTATED 4 7 0 0 1
DEL PEAK 38(16Q23.1) WILD-TYPE 10 2 7 7 15

Figure S926.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_16q23.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S927.  Gene #88: 'del_16q23.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 38(16Q23.1) MUTATED 147 4 12 3
DEL PEAK 38(16Q23.1) WILD-TYPE 61 174 87 51

Figure S927.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_16q23.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S928.  Gene #88: 'del_16q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 38(16Q23.1) MUTATED 84 37 21
DEL PEAK 38(16Q23.1) WILD-TYPE 70 41 172

Figure S928.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q23.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S929.  Gene #88: 'del_16q23.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 38(16Q23.1) MUTATED 5 7 10 28 45 19 18
DEL PEAK 38(16Q23.1) WILD-TYPE 34 74 42 28 39 49 35

Figure S929.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_16q23.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S930.  Gene #88: 'del_16q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 38(16Q23.1) MUTATED 13 84 23 12
DEL PEAK 38(16Q23.1) WILD-TYPE 95 98 70 38

Figure S930.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_16q23.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S931.  Gene #88: 'del_16q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 38(16Q23.1) MUTATED 120 16 15 15
DEL PEAK 38(16Q23.1) WILD-TYPE 68 107 78 118

Figure S931.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_16q23.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S932.  Gene #88: 'del_16q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 38(16Q23.1) MUTATED 93 8 20 4 25 11 5
DEL PEAK 38(16Q23.1) WILD-TYPE 30 45 27 61 83 55 70

Figure S932.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_16q23.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S933.  Gene #88: 'del_16q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 38(16Q23.1) MUTATED 100 14 16 16 15
DEL PEAK 38(16Q23.1) WILD-TYPE 64 66 90 117 32

Figure S933.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_16q23.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S934.  Gene #88: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 38(16Q23.1) MUTATED 38 108 15
DEL PEAK 38(16Q23.1) WILD-TYPE 180 64 125

Figure S934.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q23.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S935.  Gene #88: 'del_16q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 38(16Q23.1) MUTATED 59 16 32 31
DEL PEAK 38(16Q23.1) WILD-TYPE 57 82 60 61

Figure S935.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_16q23.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S936.  Gene #88: 'del_16q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 38(16Q23.1) MUTATED 73 21 44
DEL PEAK 38(16Q23.1) WILD-TYPE 90 111 59

Figure S936.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17p13.3' versus 'MRNA_CNMF'

P value = 0.00072 (Fisher's exact test), Q value = 0.00097

Table S937.  Gene #89: 'del_17p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 39(17P13.3) MUTATED 0 8 1 0
DEL PEAK 39(17P13.3) WILD-TYPE 15 9 13 7

Figure S937.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_17p13.3' versus 'MRNA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S938.  Gene #89: 'del_17p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 39(17P13.3) MUTATED 1 7 1 0 0
DEL PEAK 39(17P13.3) WILD-TYPE 13 2 6 7 16

Figure S938.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_17p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S939.  Gene #89: 'del_17p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 39(17P13.3) MUTATED 116 1 3 2
DEL PEAK 39(17P13.3) WILD-TYPE 92 177 96 52

Figure S939.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_17p13.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S940.  Gene #89: 'del_17p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 39(17P13.3) MUTATED 62 26 16
DEL PEAK 39(17P13.3) WILD-TYPE 92 52 177

Figure S940.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17p13.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S941.  Gene #89: 'del_17p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 39(17P13.3) MUTATED 4 2 6 17 37 14 17
DEL PEAK 39(17P13.3) WILD-TYPE 35 79 46 39 47 54 36

Figure S941.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_17p13.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S942.  Gene #89: 'del_17p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 39(17P13.3) MUTATED 4 62 21 10
DEL PEAK 39(17P13.3) WILD-TYPE 104 120 72 40

Figure S942.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_17p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S943.  Gene #89: 'del_17p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 39(17P13.3) MUTATED 94 8 6 13
DEL PEAK 39(17P13.3) WILD-TYPE 94 115 87 120

Figure S943.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_17p13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S944.  Gene #89: 'del_17p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 39(17P13.3) MUTATED 79 1 8 3 16 13 1
DEL PEAK 39(17P13.3) WILD-TYPE 44 52 39 62 92 53 74

Figure S944.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_17p13.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S945.  Gene #89: 'del_17p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 39(17P13.3) MUTATED 81 8 8 13 9
DEL PEAK 39(17P13.3) WILD-TYPE 83 72 98 120 38

Figure S945.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_17p13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S946.  Gene #89: 'del_17p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 39(17P13.3) MUTATED 32 75 12
DEL PEAK 39(17P13.3) WILD-TYPE 186 97 128

Figure S946.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17p13.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S947.  Gene #89: 'del_17p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 39(17P13.3) MUTATED 50 13 23 14
DEL PEAK 39(17P13.3) WILD-TYPE 66 85 69 78

Figure S947.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_17p13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00121 (Fisher's exact test), Q value = 0.0016

Table S948.  Gene #89: 'del_17p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 39(17P13.3) MUTATED 52 19 29
DEL PEAK 39(17P13.3) WILD-TYPE 111 113 74

Figure S948.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17p11.2' versus 'MRNA_CNMF'

P value = 0.00087 (Fisher's exact test), Q value = 0.0012

Table S949.  Gene #90: 'del_17p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 40(17P11.2) MUTATED 0 8 1 0
DEL PEAK 40(17P11.2) WILD-TYPE 15 9 13 7

Figure S949.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_17p11.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S950.  Gene #90: 'del_17p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 40(17P11.2) MUTATED 0 8 1 0 0
DEL PEAK 40(17P11.2) WILD-TYPE 14 1 6 7 16

Figure S950.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_17p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S951.  Gene #90: 'del_17p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 40(17P11.2) MUTATED 122 2 2 2
DEL PEAK 40(17P11.2) WILD-TYPE 86 176 97 52

Figure S951.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_17p11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S952.  Gene #90: 'del_17p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 40(17P11.2) MUTATED 67 31 14
DEL PEAK 40(17P11.2) WILD-TYPE 87 47 179

Figure S952.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17p11.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S953.  Gene #90: 'del_17p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 40(17P11.2) MUTATED 4 2 5 14 39 14 18
DEL PEAK 40(17P11.2) WILD-TYPE 35 79 47 42 45 54 35

Figure S953.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_17p11.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S954.  Gene #90: 'del_17p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 40(17P11.2) MUTATED 4 64 17 11
DEL PEAK 40(17P11.2) WILD-TYPE 104 118 76 39

Figure S954.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_17p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S955.  Gene #90: 'del_17p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 40(17P11.2) MUTATED 100 6 10 12
DEL PEAK 40(17P11.2) WILD-TYPE 88 117 83 121

Figure S955.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_17p11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S956.  Gene #90: 'del_17p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 40(17P11.2) MUTATED 85 1 10 2 17 12 1
DEL PEAK 40(17P11.2) WILD-TYPE 38 52 37 63 91 54 74

Figure S956.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_17p11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S957.  Gene #90: 'del_17p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 40(17P11.2) MUTATED 85 6 8 14 11
DEL PEAK 40(17P11.2) WILD-TYPE 79 74 98 119 36

Figure S957.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_17p11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S958.  Gene #90: 'del_17p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 40(17P11.2) MUTATED 27 84 13
DEL PEAK 40(17P11.2) WILD-TYPE 191 88 127

Figure S958.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17p11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S959.  Gene #90: 'del_17p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 40(17P11.2) MUTATED 50 13 25 19
DEL PEAK 40(17P11.2) WILD-TYPE 66 85 67 73

Figure S959.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_17p11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00012 (Fisher's exact test), Q value = 0.00018

Table S960.  Gene #90: 'del_17p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 40(17P11.2) MUTATED 55 18 34
DEL PEAK 40(17P11.2) WILD-TYPE 108 114 69

Figure S960.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17q11.2' versus 'MRNA_CNMF'

P value = 0.00053 (Fisher's exact test), Q value = 0.00073

Table S961.  Gene #91: 'del_17q11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 41(17Q11.2) MUTATED 0 7 0 0
DEL PEAK 41(17Q11.2) WILD-TYPE 15 10 14 7

Figure S961.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_17q11.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S962.  Gene #91: 'del_17q11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 41(17Q11.2) MUTATED 0 7 0 0 0
DEL PEAK 41(17Q11.2) WILD-TYPE 14 2 7 7 16

Figure S962.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_17q11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S963.  Gene #91: 'del_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 41(17Q11.2) MUTATED 101 1 1 2
DEL PEAK 41(17Q11.2) WILD-TYPE 107 177 98 52

Figure S963.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_17q11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S964.  Gene #91: 'del_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 41(17Q11.2) MUTATED 48 26 16
DEL PEAK 41(17Q11.2) WILD-TYPE 106 52 177

Figure S964.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17q11.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S965.  Gene #91: 'del_17q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 41(17Q11.2) MUTATED 4 3 6 15 27 11 14
DEL PEAK 41(17Q11.2) WILD-TYPE 35 78 46 41 57 57 39

Figure S965.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_17q11.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S966.  Gene #91: 'del_17q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 41(17Q11.2) MUTATED 4 52 16 8
DEL PEAK 41(17Q11.2) WILD-TYPE 104 130 77 42

Figure S966.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_17q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S967.  Gene #91: 'del_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 41(17Q11.2) MUTATED 78 8 6 12
DEL PEAK 41(17Q11.2) WILD-TYPE 110 115 87 121

Figure S967.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_17q11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S968.  Gene #91: 'del_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 41(17Q11.2) MUTATED 62 1 6 3 19 11 2
DEL PEAK 41(17Q11.2) WILD-TYPE 61 52 41 62 89 55 73

Figure S968.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_17q11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S969.  Gene #91: 'del_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 41(17Q11.2) MUTATED 66 6 7 14 8
DEL PEAK 41(17Q11.2) WILD-TYPE 98 74 99 119 39

Figure S969.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_17q11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S970.  Gene #91: 'del_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 41(17Q11.2) MUTATED 28 60 13
DEL PEAK 41(17Q11.2) WILD-TYPE 190 112 127

Figure S970.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17q11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00231 (Fisher's exact test), Q value = 0.003

Table S971.  Gene #91: 'del_17q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 41(17Q11.2) MUTATED 38 11 20 19
DEL PEAK 41(17Q11.2) WILD-TYPE 78 87 72 73

Figure S971.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_17q11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0274 (Fisher's exact test), Q value = 0.031

Table S972.  Gene #91: 'del_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 41(17Q11.2) MUTATED 43 19 26
DEL PEAK 41(17Q11.2) WILD-TYPE 120 113 77

Figure S972.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17q21.31' versus 'MRNA_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S973.  Gene #92: 'del_17q21.31' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 42(17Q21.31) MUTATED 0 9 0 0
DEL PEAK 42(17Q21.31) WILD-TYPE 15 8 14 7

Figure S973.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_17q21.31' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S974.  Gene #92: 'del_17q21.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 42(17Q21.31) MUTATED 1 8 0 0 0
DEL PEAK 42(17Q21.31) WILD-TYPE 13 1 7 7 16

Figure S974.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_17q21.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S975.  Gene #92: 'del_17q21.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 42(17Q21.31) MUTATED 111 0 1 2
DEL PEAK 42(17Q21.31) WILD-TYPE 97 178 98 52

Figure S975.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_17q21.31' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S976.  Gene #92: 'del_17q21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 42(17Q21.31) MUTATED 50 33 16
DEL PEAK 42(17Q21.31) WILD-TYPE 104 45 177

Figure S976.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17q21.31' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S977.  Gene #92: 'del_17q21.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 42(17Q21.31) MUTATED 3 3 8 17 32 12 13
DEL PEAK 42(17Q21.31) WILD-TYPE 36 78 44 39 52 56 40

Figure S977.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_17q21.31' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S978.  Gene #92: 'del_17q21.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 42(17Q21.31) MUTATED 3 59 19 7
DEL PEAK 42(17Q21.31) WILD-TYPE 105 123 74 43

Figure S978.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_17q21.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S979.  Gene #92: 'del_17q21.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 42(17Q21.31) MUTATED 88 7 5 13
DEL PEAK 42(17Q21.31) WILD-TYPE 100 116 88 120

Figure S979.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_17q21.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S980.  Gene #92: 'del_17q21.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 42(17Q21.31) MUTATED 72 1 6 3 18 12 1
DEL PEAK 42(17Q21.31) WILD-TYPE 51 52 41 62 90 54 74

Figure S980.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_17q21.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S981.  Gene #92: 'del_17q21.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 42(17Q21.31) MUTATED 73 7 7 15 7
DEL PEAK 42(17Q21.31) WILD-TYPE 91 73 99 118 40

Figure S981.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_17q21.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S982.  Gene #92: 'del_17q21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 42(17Q21.31) MUTATED 29 66 14
DEL PEAK 42(17Q21.31) WILD-TYPE 189 106 126

Figure S982.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17q21.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00021 (Fisher's exact test), Q value = 3e-04

Table S983.  Gene #92: 'del_17q21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 42(17Q21.31) MUTATED 46 16 18 16
DEL PEAK 42(17Q21.31) WILD-TYPE 70 82 74 76

Figure S983.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_17q21.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0154 (Fisher's exact test), Q value = 0.018

Table S984.  Gene #92: 'del_17q21.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 42(17Q21.31) MUTATED 49 21 26
DEL PEAK 42(17Q21.31) WILD-TYPE 114 111 77

Figure S984.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_18q21.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S985.  Gene #93: 'del_18q21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 43(18Q21.2) MUTATED 87 0 2 1
DEL PEAK 43(18Q21.2) WILD-TYPE 121 178 97 53

Figure S985.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_18q21.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S986.  Gene #93: 'del_18q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 43(18Q21.2) MUTATED 47 21 12
DEL PEAK 43(18Q21.2) WILD-TYPE 107 57 181

Figure S986.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_18q21.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S987.  Gene #93: 'del_18q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 43(18Q21.2) MUTATED 3 3 6 18 26 9 12
DEL PEAK 43(18Q21.2) WILD-TYPE 36 78 46 38 58 59 41

Figure S987.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_18q21.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S988.  Gene #93: 'del_18q21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 43(18Q21.2) MUTATED 4 47 18 8
DEL PEAK 43(18Q21.2) WILD-TYPE 104 135 75 42

Figure S988.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_18q21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S989.  Gene #93: 'del_18q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 43(18Q21.2) MUTATED 64 7 11 8
DEL PEAK 43(18Q21.2) WILD-TYPE 124 116 82 125

Figure S989.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_18q21.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S990.  Gene #93: 'del_18q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 43(18Q21.2) MUTATED 41 1 15 1 24 8 0
DEL PEAK 43(18Q21.2) WILD-TYPE 82 52 32 64 84 58 75

Figure S990.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_18q21.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S991.  Gene #93: 'del_18q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 43(18Q21.2) MUTATED 57 5 7 11 9
DEL PEAK 43(18Q21.2) WILD-TYPE 107 75 99 122 38

Figure S991.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_18q21.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S992.  Gene #93: 'del_18q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 43(18Q21.2) MUTATED 24 57 8
DEL PEAK 43(18Q21.2) WILD-TYPE 194 115 132

Figure S992.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_18q21.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00043 (Fisher's exact test), Q value = 6e-04

Table S993.  Gene #93: 'del_18q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 43(18Q21.2) MUTATED 36 8 17 17
DEL PEAK 43(18Q21.2) WILD-TYPE 80 90 75 75

Figure S993.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_18q21.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00142 (Fisher's exact test), Q value = 0.0019

Table S994.  Gene #93: 'del_18q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 43(18Q21.2) MUTATED 44 14 20
DEL PEAK 43(18Q21.2) WILD-TYPE 119 118 83

Figure S994.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_18q23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S995.  Gene #94: 'del_18q23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 44(18Q23) MUTATED 95 1 2 0
DEL PEAK 44(18Q23) WILD-TYPE 113 177 97 54

Figure S995.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #3: 'CN_CNMF'

'del_18q23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S996.  Gene #94: 'del_18q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 44(18Q23) MUTATED 54 20 12
DEL PEAK 44(18Q23) WILD-TYPE 100 58 181

Figure S996.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_18q23' versus 'RPPA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S997.  Gene #94: 'del_18q23' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 44(18Q23) MUTATED 4 3 7 18 28 12 11
DEL PEAK 44(18Q23) WILD-TYPE 35 78 45 38 56 56 42

Figure S997.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_18q23' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S998.  Gene #94: 'del_18q23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 44(18Q23) MUTATED 5 54 19 5
DEL PEAK 44(18Q23) WILD-TYPE 103 128 74 45

Figure S998.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_18q23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S999.  Gene #94: 'del_18q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 44(18Q23) MUTATED 70 9 10 9
DEL PEAK 44(18Q23) WILD-TYPE 118 114 83 124

Figure S999.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_18q23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1000.  Gene #94: 'del_18q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 44(18Q23) MUTATED 46 1 19 1 22 8 1
DEL PEAK 44(18Q23) WILD-TYPE 77 52 28 64 86 58 74

Figure S1000.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_18q23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1001.  Gene #94: 'del_18q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 44(18Q23) MUTATED 61 6 7 12 10
DEL PEAK 44(18Q23) WILD-TYPE 103 74 99 121 37

Figure S1001.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_18q23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1002.  Gene #94: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 44(18Q23) MUTATED 25 62 9
DEL PEAK 44(18Q23) WILD-TYPE 193 110 131

Figure S1002.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_18q23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00013 (Fisher's exact test), Q value = 0.00019

Table S1003.  Gene #94: 'del_18q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 44(18Q23) MUTATED 38 8 21 17
DEL PEAK 44(18Q23) WILD-TYPE 78 90 71 75

Figure S1003.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_18q23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00173 (Fisher's exact test), Q value = 0.0023

Table S1004.  Gene #94: 'del_18q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 44(18Q23) MUTATED 45 15 24
DEL PEAK 44(18Q23) WILD-TYPE 118 117 79

Figure S1004.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19p13.3' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1005.  Gene #95: 'del_19p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 45(19P13.3) MUTATED 1 11 0 0
DEL PEAK 45(19P13.3) WILD-TYPE 14 6 14 7

Figure S1005.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_19p13.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1006.  Gene #95: 'del_19p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 45(19P13.3) MUTATED 3 9 0 0 0
DEL PEAK 45(19P13.3) WILD-TYPE 11 0 7 7 16

Figure S1006.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_19p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1007.  Gene #95: 'del_19p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 45(19P13.3) MUTATED 155 0 0 2
DEL PEAK 45(19P13.3) WILD-TYPE 53 178 99 52

Figure S1007.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_19p13.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1008.  Gene #95: 'del_19p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 45(19P13.3) MUTATED 93 37 7
DEL PEAK 45(19P13.3) WILD-TYPE 61 41 186

Figure S1008.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19p13.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1009.  Gene #95: 'del_19p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 45(19P13.3) MUTATED 2 3 9 26 47 17 19
DEL PEAK 45(19P13.3) WILD-TYPE 37 78 43 30 37 51 34

Figure S1009.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_19p13.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1010.  Gene #95: 'del_19p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 45(19P13.3) MUTATED 2 87 23 11
DEL PEAK 45(19P13.3) WILD-TYPE 106 95 70 39

Figure S1010.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_19p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1011.  Gene #95: 'del_19p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 45(19P13.3) MUTATED 132 5 11 8
DEL PEAK 45(19P13.3) WILD-TYPE 56 118 82 125

Figure S1011.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_19p13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1012.  Gene #95: 'del_19p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 45(19P13.3) MUTATED 105 1 20 2 21 7 0
DEL PEAK 45(19P13.3) WILD-TYPE 18 52 27 63 87 59 75

Figure S1012.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_19p13.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1013.  Gene #95: 'del_19p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 45(19P13.3) MUTATED 114 5 10 10 13
DEL PEAK 45(19P13.3) WILD-TYPE 50 75 96 123 34

Figure S1013.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_19p13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1014.  Gene #95: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 45(19P13.3) MUTATED 27 115 10
DEL PEAK 45(19P13.3) WILD-TYPE 191 57 130

Figure S1014.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_19p13.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1015.  Gene #95: 'del_19p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 45(19P13.3) MUTATED 62 11 28 31
DEL PEAK 45(19P13.3) WILD-TYPE 54 87 64 61

Figure S1015.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_19p13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1016.  Gene #95: 'del_19p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 45(19P13.3) MUTATED 78 15 39
DEL PEAK 45(19P13.3) WILD-TYPE 85 117 64

Figure S1016.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19p12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1017.  Gene #96: 'del_19p12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 46(19P12) MUTATED 55 1 0 2
DEL PEAK 46(19P12) WILD-TYPE 153 177 99 52

Figure S1017.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #3: 'CN_CNMF'

'del_19p12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1018.  Gene #96: 'del_19p12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 46(19P12) MUTATED 33 14 5
DEL PEAK 46(19P12) WILD-TYPE 121 64 188

Figure S1018.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19p12' versus 'RPPA_CNMF'

P value = 0.0012 (Fisher's exact test), Q value = 0.0016

Table S1019.  Gene #96: 'del_19p12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 46(19P12) MUTATED 2 2 5 9 19 7 3
DEL PEAK 46(19P12) WILD-TYPE 37 79 47 47 65 61 50

Figure S1019.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_19p12' versus 'RPPA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S1020.  Gene #96: 'del_19p12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 46(19P12) MUTATED 2 32 12 1
DEL PEAK 46(19P12) WILD-TYPE 106 150 81 49

Figure S1020.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_19p12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1021.  Gene #96: 'del_19p12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 46(19P12) MUTATED 42 4 6 6
DEL PEAK 46(19P12) WILD-TYPE 146 119 87 127

Figure S1021.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_19p12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1022.  Gene #96: 'del_19p12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 46(19P12) MUTATED 32 1 9 1 11 4 0
DEL PEAK 46(19P12) WILD-TYPE 91 52 38 64 97 62 75

Figure S1022.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_19p12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1023.  Gene #96: 'del_19p12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 46(19P12) MUTATED 38 5 4 5 5
DEL PEAK 46(19P12) WILD-TYPE 126 75 102 128 42

Figure S1023.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_19p12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1024.  Gene #96: 'del_19p12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 46(19P12) MUTATED 17 36 4
DEL PEAK 46(19P12) WILD-TYPE 201 136 136

Figure S1024.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_19p12' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00586 (Fisher's exact test), Q value = 0.0072

Table S1025.  Gene #96: 'del_19p12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 46(19P12) MUTATED 24 6 7 13
DEL PEAK 46(19P12) WILD-TYPE 92 92 85 79

Figure S1025.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_19p12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-04 (Fisher's exact test), Q value = 0.00029

Table S1026.  Gene #96: 'del_19p12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 46(19P12) MUTATED 33 6 11
DEL PEAK 46(19P12) WILD-TYPE 130 126 92

Figure S1026.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19q13.43' versus 'MRNA_CNMF'

P value = 0.00089 (Fisher's exact test), Q value = 0.0012

Table S1027.  Gene #97: 'del_19q13.43' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 47(19Q13.43) MUTATED 0 8 1 0
DEL PEAK 47(19Q13.43) WILD-TYPE 15 9 13 7

Figure S1027.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_19q13.43' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1028.  Gene #97: 'del_19q13.43' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 47(19Q13.43) MUTATED 1 7 1 0 0
DEL PEAK 47(19Q13.43) WILD-TYPE 13 2 6 7 16

Figure S1028.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_19q13.43' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1029.  Gene #97: 'del_19q13.43' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 47(19Q13.43) MUTATED 65 0 1 1
DEL PEAK 47(19Q13.43) WILD-TYPE 143 178 98 53

Figure S1029.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #3: 'CN_CNMF'

'del_19q13.43' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1030.  Gene #97: 'del_19q13.43' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 47(19Q13.43) MUTATED 38 16 2
DEL PEAK 47(19Q13.43) WILD-TYPE 116 62 191

Figure S1030.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19q13.43' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1031.  Gene #97: 'del_19q13.43' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 47(19Q13.43) MUTATED 1 0 4 11 18 6 10
DEL PEAK 47(19Q13.43) WILD-TYPE 38 81 48 45 66 62 43

Figure S1031.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_19q13.43' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1032.  Gene #97: 'del_19q13.43' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 47(19Q13.43) MUTATED 1 34 11 4
DEL PEAK 47(19Q13.43) WILD-TYPE 107 148 82 46

Figure S1032.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_19q13.43' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1033.  Gene #97: 'del_19q13.43' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 47(19Q13.43) MUTATED 54 3 6 3
DEL PEAK 47(19Q13.43) WILD-TYPE 134 120 87 130

Figure S1033.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_19q13.43' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1034.  Gene #97: 'del_19q13.43' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 47(19Q13.43) MUTATED 44 1 8 0 11 2 0
DEL PEAK 47(19Q13.43) WILD-TYPE 79 52 39 65 97 64 75

Figure S1034.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_19q13.43' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1035.  Gene #97: 'del_19q13.43' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 47(19Q13.43) MUTATED 47 3 5 4 4
DEL PEAK 47(19Q13.43) WILD-TYPE 117 77 101 129 43

Figure S1035.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_19q13.43' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1036.  Gene #97: 'del_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 47(19Q13.43) MUTATED 11 50 2
DEL PEAK 47(19Q13.43) WILD-TYPE 207 122 138

Figure S1036.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_19q13.43' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00358 (Fisher's exact test), Q value = 0.0045

Table S1037.  Gene #97: 'del_19q13.43' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 47(19Q13.43) MUTATED 22 4 14 16
DEL PEAK 47(19Q13.43) WILD-TYPE 94 94 78 76

Figure S1037.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_19q13.43' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1038.  Gene #97: 'del_19q13.43' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 47(19Q13.43) MUTATED 31 4 21
DEL PEAK 47(19Q13.43) WILD-TYPE 132 128 82

Figure S1038.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_20p12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1039.  Gene #98: 'del_20p12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 48(20P12.1) MUTATED 28 2 2 3
DEL PEAK 48(20P12.1) WILD-TYPE 180 176 97 51

Figure S1039.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_20p12.1' versus 'METHLYATION_CNMF'

P value = 0.0197 (Fisher's exact test), Q value = 0.023

Table S1040.  Gene #98: 'del_20p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 48(20P12.1) MUTATED 14 8 6
DEL PEAK 48(20P12.1) WILD-TYPE 140 70 187

Figure S1040.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_20p12.1' versus 'RPPA_CHIERARCHICAL'

P value = 0.0041 (Fisher's exact test), Q value = 0.0052

Table S1041.  Gene #98: 'del_20p12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 48(20P12.1) MUTATED 5 21 1 2
DEL PEAK 48(20P12.1) WILD-TYPE 103 161 92 48

Figure S1041.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_20p12.1' versus 'MRNASEQ_CNMF'

P value = 0.00822 (Fisher's exact test), Q value = 0.01

Table S1042.  Gene #98: 'del_20p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 48(20P12.1) MUTATED 22 4 3 6
DEL PEAK 48(20P12.1) WILD-TYPE 166 119 90 127

Figure S1042.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_20p12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00258 (Fisher's exact test), Q value = 0.0033

Table S1043.  Gene #98: 'del_20p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 48(20P12.1) MUTATED 17 3 5 0 6 2 2
DEL PEAK 48(20P12.1) WILD-TYPE 106 50 42 65 102 64 73

Figure S1043.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_20p12.1' versus 'MIRSEQ_CNMF'

P value = 0.00018 (Fisher's exact test), Q value = 0.00026

Table S1044.  Gene #98: 'del_20p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 48(20P12.1) MUTATED 23 4 2 3 2
DEL PEAK 48(20P12.1) WILD-TYPE 141 76 104 130 45

Figure S1044.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_20p12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00536 (Fisher's exact test), Q value = 0.0066

Table S1045.  Gene #98: 'del_20p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 48(20P12.1) MUTATED 8 20 6
DEL PEAK 48(20P12.1) WILD-TYPE 210 152 134

Figure S1045.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_20p12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0447 (Fisher's exact test), Q value = 0.05

Table S1046.  Gene #98: 'del_20p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 48(20P12.1) MUTATED 15 3 6 5
DEL PEAK 48(20P12.1) WILD-TYPE 101 95 86 87

Figure S1046.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_22q12.1' versus 'MRNA_CNMF'

P value = 0.00252 (Fisher's exact test), Q value = 0.0032

Table S1047.  Gene #99: 'del_22q12.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 49(22Q12.1) MUTATED 0 6 0 0
DEL PEAK 49(22Q12.1) WILD-TYPE 15 11 14 7

Figure S1047.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_22q12.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00738 (Fisher's exact test), Q value = 0.009

Table S1048.  Gene #99: 'del_22q12.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 49(22Q12.1) MUTATED 2 4 0 0 0
DEL PEAK 49(22Q12.1) WILD-TYPE 12 5 7 7 16

Figure S1048.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_22q12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1049.  Gene #99: 'del_22q12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 49(22Q12.1) MUTATED 90 2 2 1
DEL PEAK 49(22Q12.1) WILD-TYPE 118 176 97 53

Figure S1049.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_22q12.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1050.  Gene #99: 'del_22q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 49(22Q12.1) MUTATED 47 20 17
DEL PEAK 49(22Q12.1) WILD-TYPE 107 58 176

Figure S1050.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_22q12.1' versus 'RPPA_CNMF'

P value = 0.00058 (Fisher's exact test), Q value = 0.00079

Table S1051.  Gene #99: 'del_22q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 49(22Q12.1) MUTATED 3 5 7 16 24 9 10
DEL PEAK 49(22Q12.1) WILD-TYPE 36 76 45 40 60 59 43

Figure S1051.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_22q12.1' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1052.  Gene #99: 'del_22q12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 49(22Q12.1) MUTATED 3 45 19 7
DEL PEAK 49(22Q12.1) WILD-TYPE 105 137 74 43

Figure S1052.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_22q12.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1053.  Gene #99: 'del_22q12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 49(22Q12.1) MUTATED 66 9 6 14
DEL PEAK 49(22Q12.1) WILD-TYPE 122 114 87 119

Figure S1053.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_22q12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1054.  Gene #99: 'del_22q12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 49(22Q12.1) MUTATED 49 1 4 1 24 15 1
DEL PEAK 49(22Q12.1) WILD-TYPE 74 52 43 64 84 51 74

Figure S1054.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_22q12.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1055.  Gene #99: 'del_22q12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 49(22Q12.1) MUTATED 61 6 2 18 6
DEL PEAK 49(22Q12.1) WILD-TYPE 103 74 104 115 41

Figure S1055.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_22q12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 4.7e-05

Table S1056.  Gene #99: 'del_22q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 49(22Q12.1) MUTATED 29 49 15
DEL PEAK 49(22Q12.1) WILD-TYPE 189 123 125

Figure S1056.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_22q12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00794 (Fisher's exact test), Q value = 0.0097

Table S1057.  Gene #99: 'del_22q12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 49(22Q12.1) MUTATED 34 16 19 10
DEL PEAK 49(22Q12.1) WILD-TYPE 82 82 73 82

Figure S1057.  Get High-res Image Gene #99: 'del_22q12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_22q13.32' versus 'MRNA_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 9.1e-05

Table S1058.  Gene #100: 'del_22q13.32' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 50(22Q13.32) MUTATED 0 9 0 0
DEL PEAK 50(22Q13.32) WILD-TYPE 15 8 14 7

Figure S1058.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_22q13.32' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1059.  Gene #100: 'del_22q13.32' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 50(22Q13.32) MUTATED 2 7 0 0 0
DEL PEAK 50(22Q13.32) WILD-TYPE 12 2 7 7 16

Figure S1059.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_22q13.32' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1060.  Gene #100: 'del_22q13.32' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 50(22Q13.32) MUTATED 133 3 3 1
DEL PEAK 50(22Q13.32) WILD-TYPE 75 175 96 53

Figure S1060.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #3: 'CN_CNMF'

'del_22q13.32' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1061.  Gene #100: 'del_22q13.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 50(22Q13.32) MUTATED 72 32 20
DEL PEAK 50(22Q13.32) WILD-TYPE 82 46 173

Figure S1061.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_22q13.32' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1062.  Gene #100: 'del_22q13.32' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 50(22Q13.32) MUTATED 3 5 8 21 41 16 18
DEL PEAK 50(22Q13.32) WILD-TYPE 36 76 44 35 43 52 35

Figure S1062.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_22q13.32' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1063.  Gene #100: 'del_22q13.32' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 50(22Q13.32) MUTATED 4 72 24 12
DEL PEAK 50(22Q13.32) WILD-TYPE 104 110 69 38

Figure S1063.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_22q13.32' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1064.  Gene #100: 'del_22q13.32' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 50(22Q13.32) MUTATED 104 10 9 16
DEL PEAK 50(22Q13.32) WILD-TYPE 84 113 84 117

Figure S1064.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_22q13.32' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1065.  Gene #100: 'del_22q13.32' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 50(22Q13.32) MUTATED 83 1 10 2 26 14 3
DEL PEAK 50(22Q13.32) WILD-TYPE 40 52 37 63 82 52 72

Figure S1065.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1066.  Gene #100: 'del_22q13.32' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 50(22Q13.32) MUTATED 93 7 7 19 10
DEL PEAK 50(22Q13.32) WILD-TYPE 71 73 99 114 37

Figure S1066.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_22q13.32' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1067.  Gene #100: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 50(22Q13.32) MUTATED 34 86 16
DEL PEAK 50(22Q13.32) WILD-TYPE 184 86 124

Figure S1067.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MIRSEQ_MATURE_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.00012

Table S1068.  Gene #100: 'del_22q13.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 50(22Q13.32) MUTATED 53 18 24 23
DEL PEAK 50(22Q13.32) WILD-TYPE 63 80 68 69

Figure S1068.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_22q13.32' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1069.  Gene #100: 'del_22q13.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 50(22Q13.32) MUTATED 65 20 33
DEL PEAK 50(22Q13.32) WILD-TYPE 98 112 70

Figure S1069.  Get High-res Image Gene #100: 'del_22q13.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_xp21.1' versus 'MRNA_CNMF'

P value = 0.00053 (Fisher's exact test), Q value = 0.00073

Table S1070.  Gene #101: 'del_xp21.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 15 17 14 7
DEL PEAK 51(XP21.1) MUTATED 0 7 0 0
DEL PEAK 51(XP21.1) WILD-TYPE 15 10 14 7

Figure S1070.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_xp21.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00106 (Fisher's exact test), Q value = 0.0014

Table S1071.  Gene #101: 'del_xp21.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 14 9 7 7 16
DEL PEAK 51(XP21.1) MUTATED 2 5 0 0 0
DEL PEAK 51(XP21.1) WILD-TYPE 12 4 7 7 16

Figure S1071.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_xp21.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1072.  Gene #101: 'del_xp21.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 208 178 99 54
DEL PEAK 51(XP21.1) MUTATED 85 2 0 1
DEL PEAK 51(XP21.1) WILD-TYPE 123 176 99 53

Figure S1072.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_xp21.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1073.  Gene #101: 'del_xp21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 154 78 193
DEL PEAK 51(XP21.1) MUTATED 46 18 10
DEL PEAK 51(XP21.1) WILD-TYPE 108 60 183

Figure S1073.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_xp21.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1074.  Gene #101: 'del_xp21.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 39 81 52 56 84 68 53
DEL PEAK 51(XP21.1) MUTATED 2 2 6 14 30 8 12
DEL PEAK 51(XP21.1) WILD-TYPE 37 79 46 42 54 60 41

Figure S1074.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_xp21.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1075.  Gene #101: 'del_xp21.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 108 182 93 50
DEL PEAK 51(XP21.1) MUTATED 4 51 13 6
DEL PEAK 51(XP21.1) WILD-TYPE 104 131 80 44

Figure S1075.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_xp21.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1076.  Gene #101: 'del_xp21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 188 123 93 133
DEL PEAK 51(XP21.1) MUTATED 70 6 5 6
DEL PEAK 51(XP21.1) WILD-TYPE 118 117 88 127

Figure S1076.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_xp21.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1077.  Gene #101: 'del_xp21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 123 53 47 65 108 66 75
DEL PEAK 51(XP21.1) MUTATED 56 2 10 1 14 4 0
DEL PEAK 51(XP21.1) WILD-TYPE 67 51 37 64 94 62 75

Figure S1077.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_xp21.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1078.  Gene #101: 'del_xp21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 164 80 106 133 47
DEL PEAK 51(XP21.1) MUTATED 61 4 6 8 6
DEL PEAK 51(XP21.1) WILD-TYPE 103 76 100 125 41

Figure S1078.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_xp21.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 1.7e-05

Table S1079.  Gene #101: 'del_xp21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 218 172 140
DEL PEAK 51(XP21.1) MUTATED 22 58 5
DEL PEAK 51(XP21.1) WILD-TYPE 196 114 135

Figure S1079.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_xp21.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 6.2e-05

Table S1080.  Gene #101: 'del_xp21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 116 98 92 92
DEL PEAK 51(XP21.1) MUTATED 39 9 15 11
DEL PEAK 51(XP21.1) WILD-TYPE 77 89 77 81

Figure S1080.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_xp21.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 3.2e-05

Table S1081.  Gene #101: 'del_xp21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 163 132 103
DEL PEAK 51(XP21.1) MUTATED 43 8 23
DEL PEAK 51(XP21.1) WILD-TYPE 120 124 80

Figure S1081.  Get High-res Image Gene #101: 'del_xp21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

Methods & Data
Input

  • Copy number data file = all_lesions.txt from GISTIC pipeline

  • Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCEC-TP/22534122/transformed.cor.cli.txt

  • Molecular subtype file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCEC-TP/22553827/UCEC-TP.transferedmergedcluster.txt

  • Number of patients = 539

  • Number of significantly focal cnvs = 101

  • Number of molecular subtypes = 12

  • Exclude genes that fewer than K tumors have alterations, K = 3

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References
[1] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)
[2] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)
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