Correlation between copy number variation genes (focal events) and molecular subtypes
Uterine Corpus Endometrioid Carcinoma (Primary solid tumor)
17 October 2014  |  analyses__2014_10_17
Maintainer Information
Citation Information
doi:10.7908/C1B27T7K
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Correlation between copy number variation genes (focal events) and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1B27T7K
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 100 focal events and 12 molecular subtypes across 539 patients, 748 significant findings detected with P value < 0.05 and Q value < 0.25.

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

  • amp_1p34.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1p22.3 cnv correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q21.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q22 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_1q44 cnv correlated to 'CN_CNMF' and 'MIRSEQ_CNMF'.

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

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

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

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

  • amp_4p16.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

  • amp_6p22.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  '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',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

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

  • amp_8p11.22 cnv correlated to 'CN_CNMF'.

  • amp_8p11.21 cnv correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

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

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

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

  • amp_10q22.2 cnv correlated to 'CN_CNMF'.

  • amp_11p11.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • amp_11q13.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

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

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

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

  • amp_14q24.3 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

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

  • amp_16p11.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

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

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

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

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

  • amp_20q13.33 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  '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',  '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', and 'MIRSEQ_CHIERARCHICAL'.

  • amp_xq28 cnv correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

  • del_1p36.21 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_1p36.11 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_2q22.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

  • del_3p14.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  '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',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

  • del_4p15.2 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

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

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

  • del_7p22.3 cnv correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  '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',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

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

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

  • del_9p23 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

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

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

  • del_13q11 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

  • del_14q13.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

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

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

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

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

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

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

  • del_17q11.2 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

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

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

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

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

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

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

  • del_xp21.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  '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 100 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, 748 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 3q26 2 175 (32%) 364 6e-05
(0.0304) 		2e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00015
(0.0723) 		0.00816
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 20q11 21 152 (28%) 387 0.0004
(0.183) 		3e-05
(0.0162) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0004
(0.183) 		0.108
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118)
del 9q21 2 129 (24%) 410 6e-05
(0.0304) 		5e-05
(0.0258) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00035
(0.161) 		0.696
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00037
(0.17) 		1e-05
(0.0118)
del 9q34 2 132 (24%) 407 3e-05
(0.0162) 		4e-05
(0.021) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00045
(0.203) 		0.34
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		7e-05
(0.0351) 		1e-05
(0.0118)
del 19p13 3 154 (29%) 385 1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		0.0114
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 3q26 2 164 (30%) 375 0.00038
(0.174) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00061
(0.263) 		0.016
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 17q25 1 105 (19%) 434 2e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00495
(1.00) 		0.109
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		5e-05
(0.0258)
amp 19p13 2 99 (18%) 440 0.00387
(1.00) 		0.0001
(0.0494) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0193
(1.00) 		0.00047
(0.21) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 22q13 32 141 (26%) 398 5e-05
(0.0258) 		3e-05
(0.0162) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00117
(0.477) 		0.131
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		7e-05
(0.0351) 		2e-05
(0.0118)
amp 6p24 2 117 (22%) 422 0.00254
(0.97) 		0.00069
(0.295) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0001
(0.0494) 		0.218
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		4e-05
(0.021)
amp 8q24 21 209 (39%) 330 0.0121
(1.00) 		0.0714
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		0.0254
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 8q24 21 215 (40%) 324 0.00273
(1.00) 		0.00573
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		0.00715
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 19q12 121 (22%) 418 0.00515
(1.00) 		3e-05
(0.0162) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00463
(1.00) 		0.00155
(0.618) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 4q22 1 106 (20%) 433 0.00365
(1.00) 		0.0001
(0.0494) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.014
(1.00) 		0.225
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 4q34 3 130 (24%) 409 0.00407
(1.00) 		0.00011
(0.054) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0622
(1.00) 		0.575
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 5q12 1 111 (21%) 428 0.0125
(1.00) 		0.00993
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00021
(0.0991) 		0.0139
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118)
del 7p22 3 72 (13%) 467 0.00014
(0.0679) 		0.00181
(0.713) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0075
(1.00) 		0.0224
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00022
(0.103) 		1e-05
(0.0118)
del 8p23 2 119 (22%) 420 0.00201
(0.78) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0447
(1.00) 		0.0167
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 8p21 2 117 (22%) 422 0.00212
(0.818) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0196
(1.00) 		0.00177
(0.701) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 15q23 115 (21%) 424 0.0017
(0.675) 		0.00053
(0.233) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.119
(1.00) 		0.741
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 16q21 154 (29%) 385 0.00087
(0.365) 		8e-05
(0.0398) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0895
(1.00) 		0.54
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 16q23 1 166 (31%) 373 0.00319
(1.00) 		0.00014
(0.0679) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0359
(1.00) 		0.9
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 17p13 3 122 (23%) 417 0.00078
(0.33) 		2e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00166
(0.661) 		0.477
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		5e-05
(0.0258)
del 17p11 2 128 (24%) 411 0.00075
(0.318) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00366
(1.00) 		0.142
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 17q21 31 114 (21%) 425 2e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00446
(1.00) 		0.397
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00011
(0.054) 		0.00112
(0.458)
amp 1p35 2 56 (10%) 483 0.0517
(1.00) 		0.00047
(0.21) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00078
(0.33) 		0.14
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0361
(1.00) 		0.00019
(0.0899)
amp 2q13 119 (22%) 420 0.158
(1.00) 		0.0291
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0022
(0.845) 		0.0342
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 5p15 33 89 (17%) 450 0.233
(1.00) 		0.044
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.292
(1.00) 		0.447
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 6p22 3 107 (20%) 432 0.188
(1.00) 		0.115
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0224
(1.00) 		0.641
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 9p24 2 65 (12%) 474 0.128
(1.00) 		0.0882
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00141
(0.567) 		0.0087
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00018
(0.0853) 		0.00015
(0.0723)
amp 12p12 1 93 (17%) 446 0.329
(1.00) 		0.539
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.523
(1.00) 		0.988
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00044
(0.2) 		5e-05
(0.0258)
amp 12q13 2 100 (19%) 439 0.181
(1.00) 		0.0871
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.333
(1.00) 		0.614
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00025
(0.116)
amp 13q34 58 (11%) 481 0.692
(1.00) 		0.168
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.223
(1.00) 		0.0284
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00047
(0.21) 		1e-05
(0.0118)
amp 17q11 2 71 (13%) 468 0.151
(1.00) 		0.0498
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00757
(1.00) 		0.0688
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 17q12 75 (14%) 464 0.105
(1.00) 		0.0021
(0.813) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.006
(1.00) 		0.0537
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		4e-05
(0.021) 		1e-05
(0.0118)
amp 18p11 31 96 (18%) 443 0.155
(1.00) 		0.0542
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00502
(1.00) 		0.0884
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 18q11 2 69 (13%) 470 0.108
(1.00) 		0.182
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.18
(1.00) 		0.0227
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 20p13 117 (22%) 422 0.151
(1.00) 		0.0498
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.122
(1.00) 		0.269
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0005
(0.221) 		1e-05
(0.0118)
amp 20q13 12 152 (28%) 387 0.0129
(1.00) 		0.0101
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00562
(1.00) 		0.331
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 20q13 33 153 (28%) 386 0.009
(1.00) 		0.00139
(0.56) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0451
(1.00) 		0.61
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
amp 22q12 2 62 (12%) 477 0.379
(1.00) 		0.195
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.113
(1.00) 		0.00456
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 3p14 2 79 (15%) 460 0.0518
(1.00) 		0.00752
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0031
(1.00) 		0.0733
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00027
(0.125) 		1e-05
(0.0118)
del 4p16 3 94 (17%) 445 0.0135
(1.00) 		0.00104
(0.428) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00414
(1.00) 		0.409
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		2e-05
(0.0118)
del 4p15 2 98 (18%) 441 0.0128
(1.00) 		0.0101
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00805
(1.00) 		0.498
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118)
del 7q31 1 55 (10%) 484 0.137
(1.00) 		0.165
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0608
(1.00) 		0.0125
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00032
(0.148) 		0.00053
(0.233)
del 7q36 1 63 (12%) 476 0.334
(1.00) 		0.079
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0106
(1.00) 		0.00371
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00012
(0.0587) 		3e-05
(0.0162)
del 11p15 5 106 (20%) 433 0.381
(1.00) 		0.194
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.288
(1.00) 		0.0672
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 11q14 1 70 (13%) 469 1e-05
(0.0118) 		1e-05
(0.0118) 		0.505
(1.00) 		0.585
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 11q25 93 (17%) 446 1e-05
(0.0118) 		1e-05
(0.0118) 		0.111
(1.00) 		1
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 12q23 1 56 (10%) 483 1e-05
(0.0118) 		1e-05
(0.0118) 		0.038
(1.00) 		0.0223
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		5e-05
(0.0258) 		1e-05
(0.0118)
del 12q24 33 66 (12%) 473 1e-05
(0.0118) 		1e-05
(0.0118) 		0.0427
(1.00) 		0.038
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		1e-05
(0.0118)
del 15q15 1 140 (26%) 399 0.0507
(1.00) 		0.0103
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00259
(0.987) 		0.292
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 16p13 3 92 (17%) 447 0.0129
(1.00) 		0.0099
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0633
(1.00) 		0.0472
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118)
del 16q22 3 158 (29%) 381 0.0332
(1.00) 		0.0105
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0778
(1.00) 		0.867
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118)
del 18q23 98 (18%) 441 0.62
(1.00) 		0.252
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0408
(1.00) 		0.871
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00026
(0.121) 		0.00013
(0.0632)
del 19q13 43 67 (12%) 472 0.00059
(0.256) 		4e-05
(0.021) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.107
(1.00) 		0.19
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00994
(1.00) 		1e-05
(0.0118)
del xp21 1 88 (16%) 451 0.00074
(0.314) 		0.00108
(0.443) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00269
(1.00) 		0.821
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00015
(0.0723) 		1e-05
(0.0118)
amp 1p34 2 73 (14%) 466 0.0132
(1.00) 		0.001
(0.415) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0201
(1.00) 		0.107
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00179
(0.707) 		1e-05
(0.0118)
amp 1p22 3 96 (18%) 443 0.0195
(1.00) 		0.0152
(1.00) 		1e-05
(0.0118) 		0.00059
(0.256) 		0.896
(1.00) 		0.847
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118) 		0.00024
(0.112) 		1e-05
(0.0118)
amp 1q21 3 242 (45%) 297 0.0147
(1.00) 		0.00561
(1.00) 		1e-05
(0.0118) 		0.00036
(0.166) 		0.413
(1.00) 		0.298
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118) 		0.00435
(1.00) 		1e-05
(0.0118)
amp 1q22 256 (47%) 283 0.022
(1.00) 		0.0108
(1.00) 		1e-05
(0.0118) 		5e-05
(0.0258) 		0.199
(1.00) 		0.199
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		2e-05
(0.0118) 		1e-05
(0.0118) 		0.0531
(1.00) 		0.00017
(0.0811)
amp 2p24 3 121 (22%) 418 0.683
(1.00) 		0.132
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0477
(1.00) 		0.246
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00015
(0.0723) 		0.00079
(0.333)
amp 3p25 1 82 (15%) 457 0.189
(1.00) 		0.0521
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0327
(1.00) 		0.299
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		0.00147
(0.589)
amp 4p16 3 53 (10%) 486 0.0502
(1.00) 		0.00783
(1.00) 		1e-05
(0.0118) 		4e-05
(0.021) 		0.0912
(1.00) 		0.00096
(0.4) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00131
(0.532) 		0.00046
(0.207)
amp 5q35 3 57 (11%) 482 0.136
(1.00) 		0.166
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.124
(1.00) 		0.933
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00057
(0.248) 		0.00126
(0.513)
amp 6q25 1 88 (16%) 451 0.284
(1.00) 		1
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.088
(1.00) 		0.459
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		1e-05
(0.0118) 		3e-05
(0.0162) 		0.0308
(1.00)
amp 12q13 11 87 (16%) 452 0.378
(1.00) 		0.202
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.566
(1.00) 		0.662
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00137
(0.553) 		0.00044
(0.2)
amp 16p11 2 66 (12%) 473 0.00835
(1.00) 		0.00476
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0644
(1.00) 		0.099
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00306
(1.00) 		0.00046
(0.207)
del 1p36 21 71 (13%) 468 0.0242
(1.00) 		0.00185
(0.727) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00482
(1.00) 		0.271
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00147
(0.589) 		0.00021
(0.0991)
del 1p36 11 83 (15%) 456 0.052
(1.00) 		0.00756
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0236
(1.00) 		0.618
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00101
(0.417) 		1e-05
(0.0118)
del 6q26 46 (9%) 493 0.381
(1.00) 		0.0296
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.714
(1.00) 		0.131
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00062
(0.266) 		8e-05
(0.0398)
del 10q23 31 77 (14%) 462 0.135
(1.00) 		0.168
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0708
(1.00) 		1
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00071
(0.302) 		1e-05
(0.0118)
del 14q13 1 73 (14%) 466 0.00841
(1.00) 		0.00493
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0601
(1.00) 		0.181
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.001
(0.415) 		1e-05
(0.0118)
del 17q11 2 105 (19%) 434 0.00059
(0.256) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0198
(1.00) 		0.819
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00369
(1.00) 		0.00291
(1.00)
del 18q21 2 91 (17%) 448 0.617
(1.00) 		0.253
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.043
(1.00) 		0.726
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00191
(0.749) 		4e-05
(0.021)
del 19p12 58 (11%) 481 1e-05
(0.0118) 		1e-05
(0.0118) 		0.357
(1.00) 		0.456
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0325
(1.00) 		5e-05
(0.0258)
amp 3p14 1 65 (12%) 474 0.538
(1.00) 		0.516
(1.00) 		1e-05
(0.0118) 		0.00023
(0.108) 		0.0328
(1.00) 		0.664
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		5e-05
(0.0258) 		1e-05
(0.0118) 		0.00335
(1.00) 		0.173
(1.00)
amp 8p11 21 162 (30%) 377 0.0107
(1.00) 		0.03
(1.00) 		1e-05
(0.0118) 		0.0028
(1.00) 		0.00104
(0.428) 		0.052
(1.00) 		1e-05
(0.0118) 		2e-05
(0.0118) 		0.00012
(0.0587) 		1e-05
(0.0118) 		6e-05
(0.0304) 		0.00199
(0.776)
amp 9q34 3 39 (7%) 500 0.242
(1.00) 		0.0139
(1.00) 		1e-05
(0.0118) 		6e-05
(0.0304) 		0.326
(1.00) 		0.696
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		5e-05
(0.0258) 		1e-05
(0.0118) 		0.0431
(1.00) 		0.0029
(1.00)
amp 11p11 2 51 (9%) 488 0.00213
(0.82) 		0.00722
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0289
(1.00) 		0.078
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.024
(1.00) 		0.0417
(1.00)
amp 11q13 2 74 (14%) 465 0.00196
(0.766) 		0.00753
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0824
(1.00) 		0.189
(1.00) 		1e-05
(0.0118) 		2e-05
(0.0118) 		4e-05
(0.021) 		1e-05
(0.0118) 		0.06
(1.00) 		0.00895
(1.00)
amp 11q14 1 59 (11%) 480 0.379
(1.00) 		0.197
(1.00) 		1e-05
(0.0118) 		2e-05
(0.0118) 		0.454
(1.00) 		0.186
(1.00) 		2e-05
(0.0118) 		1e-05
(0.0118) 		3e-05
(0.0162) 		2e-05
(0.0118) 		0.0167
(1.00) 		0.0249
(1.00)
amp 14q24 3 64 (12%) 475 0.06
(1.00) 		0.0107
(1.00) 		1e-05
(0.0118) 		2e-05
(0.0118) 		0.0536
(1.00) 		0.269
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0653
(1.00) 		0.0451
(1.00)
amp 14q32 33 79 (15%) 460 0.432
(1.00) 		0.315
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0778
(1.00) 		0.632
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00281
(1.00) 		0.0257
(1.00)
del 2q22 1 48 (9%) 491 0.0391
(1.00) 		0.00067
(0.287) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0571
(1.00) 		0.0109
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		9e-05
(0.0445) 		0.00095
(0.397) 		0.00098
(0.408)
del 3q13 31 43 (8%) 496 0.616
(1.00) 		0.184
(1.00) 		1e-05
(0.0118) 		0.00046
(0.207) 		0.156
(1.00) 		0.14
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00047
(0.21) 		0.0159
(1.00) 		0.312
(1.00)
del 7q11 22 41 (8%) 498 1e-05
(0.0118) 		1e-05
(0.0118) 		0.038
(1.00) 		0.0152
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.00739
(1.00) 		0.00136
(0.551)
del 9p23 79 (15%) 460 0.381
(1.00) 		0.029
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0162
(1.00) 		0.393
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.022
(1.00) 		0.0066
(1.00)
del 13q11 98 (18%) 441 0.332
(1.00) 		0.0398
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.188
(1.00) 		0.813
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0257
(1.00) 		0.0066
(1.00)
del 13q14 2 107 (20%) 432 0.619
(1.00) 		0.0655
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0776
(1.00) 		0.696
(1.00) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		1e-05
(0.0118) 		0.0212
(1.00) 		0.00289
(1.00)
amp 7q31 2 93 (17%) 446 0.535
(1.00) 		0.435
(1.00) 		1e-05
(0.0118) 		0.00014
(0.0679) 		0.648
(1.00) 		0.496
(1.00) 		0.00024
(0.112) 		0.00017
(0.0811) 		0.00047
(0.21) 		0.0113
(1.00) 		0.0217
(1.00) 		0.0146
(1.00)
amp 15q26 3 38 (7%) 501 1e-05
(0.0118) 		0.00901
(1.00) 		0.0727
(1.00) 		0.716
(1.00) 		1e-05
(0.0118) 		2e-05
(0.0118) 		4e-05
(0.021) 		7e-05
(0.0351) 		0.123
(1.00) 		0.162
(1.00)
amp xp11 23 90 (17%) 449 0.356
(1.00) 		0.815
(1.00) 		1e-05
(0.0118) 		0.00022
(0.103) 		0.726
(1.00) 		0.863
(1.00) 		0.00015
(0.0723) 		2e-05
(0.0118) 		0.00061
(0.263) 		0.00051
(0.225) 		0.00886
(1.00) 		0.0101
(1.00)
del 2p25 3 26 (5%) 513 1e-05
(0.0118) 		0.00017
(0.0811) 		0.27
(1.00) 		0.0928
(1.00) 		7e-05
(0.0351) 		8e-05
(0.0398) 		0.00041
(0.187) 		0.00412
(1.00) 		0.175
(1.00) 		0.141
(1.00)
del 2q37 3 53 (10%) 486 1e-05
(0.0118) 		2e-05
(0.0118) 		0.244
(1.00) 		0.815
(1.00) 		1e-05
(0.0118) 		3e-05
(0.0162) 		1e-05
(0.0118) 		0.0101
(1.00) 		0.199
(1.00) 		0.124
(1.00)
del 20p12 1 36 (7%) 503 1
(1.00) 		0.516
(1.00) 		1e-05
(0.0118) 		0.0435
(1.00) 		0.141
(1.00) 		0.557
(1.00) 		0.00053
(0.233) 		0.00044
(0.2) 		0.00056
(0.244) 		0.00051
(0.225) 		0.0893
(1.00) 		0.19
(1.00)
amp 1q44 218 (40%) 321 0.0314
(1.00) 		0.0385
(1.00) 		1e-05
(0.0118) 		0.0368
(1.00) 		0.732
(1.00) 		0.107
(1.00) 		0.00345
(1.00) 		0.00199
(0.776) 		3e-05
(0.0162) 		0.00431
(1.00) 		0.866
(1.00) 		0.0648
(1.00)
amp xq28 93 (17%) 446 0.0855
(1.00) 		0.0255
(1.00) 		1e-05
(0.0118) 		0.0313
(1.00) 		0.225
(1.00) 		0.727
(1.00) 		0.00089
(0.373) 		0.00012
(0.0587) 		0.00262
(0.996) 		0.00246
(0.942) 		0.0179
(1.00) 		0.167
(1.00)
amp 8p11 22 126 (23%) 413 0.087
(1.00) 		0.228
(1.00) 		1e-05
(0.0118) 		1
(1.00) 		0.0354
(1.00) 		0.424
(1.00) 		0.176
(1.00) 		0.941
(1.00) 		0.52
(1.00) 		0.0698
(1.00) 		0.721
(1.00) 		0.75
(1.00)
amp 10q22 2 143 (27%) 396 0.0314
(1.00) 		0.114
(1.00) 		1e-05
(0.0118) 		0.184
(1.00) 		0.31
(1.00) 		0.552
(1.00) 		0.0119
(1.00) 		0.00266
(1.00) 		0.491
(1.00) 		0.00365
(1.00) 		0.976
(1.00) 		0.19
(1.00)
'amp_1p35.2' versus 'MRNA_CHIERARCHICAL'

P value = 0.00047 (Fisher's exact test), Q value = 0.21

Table S1.  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 S1.  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 = 0.012

Table S2.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 1(1P35.2) MUTATED 54 0 1 0 1
AMP PEAK 1(1P35.2) WILD-TYPE 115 305 18 9 36

Figure S2.  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 = 0.012

Table S3.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 1(1P35.2) MUTATED 35 4 6
AMP PEAK 1(1P35.2) WILD-TYPE 130 85 165

Figure S3.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1p35.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S4.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 1(1P35.2) MUTATED 0 48 6
AMP PEAK 1(1P35.2) WILD-TYPE 151 182 143

Figure S4.  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 = 0.012

Table S5.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 1(1P35.2) MUTATED 6 42 6
AMP PEAK 1(1P35.2) WILD-TYPE 210 127 139

Figure S5.  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 = 0.012

Table S6.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 1(1P35.2) MUTATED 42 6 5
AMP PEAK 1(1P35.2) WILD-TYPE 184 137 156

Figure S6.  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 = 0.012

Table S7.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 1(1P35.2) MUTATED 6 1 33 13
AMP PEAK 1(1P35.2) WILD-TYPE 135 59 90 193

Figure S7.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p35.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00019 (Fisher's exact test), Q value = 0.09

Table S8.  Gene #1: 'amp_1p35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 1(1P35.2) MUTATED 28 6 8
AMP PEAK 1(1P35.2) WILD-TYPE 116 109 131

Figure S8.  Get High-res Image Gene #1: 'amp_1p35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1p34.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S9.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 2(1P34.2) MUTATED 71 0 1 0 1
AMP PEAK 2(1P34.2) WILD-TYPE 98 305 18 9 36

Figure S9.  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 = 0.012

Table S10.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 2(1P34.2) MUTATED 48 10 5
AMP PEAK 2(1P34.2) WILD-TYPE 117 79 166

Figure S10.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1p34.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S11.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 2(1P34.2) MUTATED 1 63 6
AMP PEAK 2(1P34.2) WILD-TYPE 150 167 143

Figure S11.  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 = 0.012

Table S12.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 2(1P34.2) MUTATED 7 57 6
AMP PEAK 2(1P34.2) WILD-TYPE 209 112 139

Figure S12.  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 = 0.012

Table S13.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 2(1P34.2) MUTATED 62 5 4
AMP PEAK 2(1P34.2) WILD-TYPE 164 138 157

Figure S13.  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 = 0.012

Table S14.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 2(1P34.2) MUTATED 5 1 47 18
AMP PEAK 2(1P34.2) WILD-TYPE 136 59 76 188

Figure S14.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S15.  Gene #2: 'amp_1p34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 2(1P34.2) MUTATED 39 5 15
AMP PEAK 2(1P34.2) WILD-TYPE 105 110 124

Figure S15.  Get High-res Image Gene #2: 'amp_1p34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S16.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 3(1P22.3) MUTATED 53 30 2 7 4
AMP PEAK 3(1P22.3) WILD-TYPE 116 275 17 2 33

Figure S16.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1p22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S17.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 3(1P22.3) MUTATED 26 59 8
AMP PEAK 3(1P22.3) WILD-TYPE 125 171 141

Figure S17.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1p22.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S18.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 3(1P22.3) MUTATED 37 49 7
AMP PEAK 3(1P22.3) WILD-TYPE 179 120 138

Figure S18.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1p22.3' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S19.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 3(1P22.3) MUTATED 54 33 8
AMP PEAK 3(1P22.3) WILD-TYPE 172 110 153

Figure S19.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1p22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S20.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 3(1P22.3) MUTATED 11 9 39 36
AMP PEAK 3(1P22.3) WILD-TYPE 130 51 84 170

Figure S20.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.11

Table S21.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 3(1P22.3) MUTATED 48 13 14
AMP PEAK 3(1P22.3) WILD-TYPE 124 83 116

Figure S21.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_1p22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S22.  Gene #3: 'amp_1p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 3(1P22.3) MUTATED 46 8 21
AMP PEAK 3(1P22.3) WILD-TYPE 98 107 118

Figure S22.  Get High-res Image Gene #3: 'amp_1p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S23.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 4(1Q21.3) MUTATED 105 90 13 9 25
AMP PEAK 4(1Q21.3) WILD-TYPE 64 215 6 0 12

Figure S23.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q21.3' versus 'METHLYATION_CNMF'

P value = 0.00036 (Fisher's exact test), Q value = 0.17

Table S24.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 4(1Q21.3) MUTATED 92 31 62
AMP PEAK 4(1Q21.3) WILD-TYPE 73 58 109

Figure S24.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1q21.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S25.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 4(1Q21.3) MUTATED 69 128 41
AMP PEAK 4(1Q21.3) WILD-TYPE 82 102 108

Figure S25.  Get High-res Image Gene #4: '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 = 0.012

Table S26.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 4(1Q21.3) MUTATED 96 103 39
AMP PEAK 4(1Q21.3) WILD-TYPE 120 66 106

Figure S26.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S27.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 4(1Q21.3) MUTATED 119 75 45
AMP PEAK 4(1Q21.3) WILD-TYPE 107 68 116

Figure S27.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1q21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S28.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 4(1Q21.3) MUTATED 44 30 80 85
AMP PEAK 4(1Q21.3) WILD-TYPE 97 30 43 121

Figure S28.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S29.  Gene #4: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 4(1Q21.3) MUTATED 88 37 56
AMP PEAK 4(1Q21.3) WILD-TYPE 56 78 83

Figure S29.  Get High-res Image Gene #4: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q22' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S30.  Gene #5: 'amp_1q22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 5(1Q22) MUTATED 116 93 13 9 25
AMP PEAK 5(1Q22) WILD-TYPE 53 212 6 0 12

Figure S30.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q22' versus 'METHLYATION_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S31.  Gene #5: 'amp_1q22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 5(1Q22) MUTATED 100 34 63
AMP PEAK 5(1Q22) WILD-TYPE 65 55 108

Figure S31.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1q22' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S32.  Gene #5: 'amp_1q22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 5(1Q22) MUTATED 70 137 45
AMP PEAK 5(1Q22) WILD-TYPE 81 93 104

Figure S32.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1q22' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S33.  Gene #5: 'amp_1q22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 5(1Q22) MUTATED 98 111 43
AMP PEAK 5(1Q22) WILD-TYPE 118 58 102

Figure S33.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q22' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S34.  Gene #5: 'amp_1q22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 5(1Q22) MUTATED 126 77 50
AMP PEAK 5(1Q22) WILD-TYPE 100 66 111

Figure S34.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_1q22' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S35.  Gene #5: 'amp_1q22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 5(1Q22) MUTATED 48 31 88 86
AMP PEAK 5(1Q22) WILD-TYPE 93 29 35 120

Figure S35.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q22' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.081

Table S36.  Gene #5: 'amp_1q22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 5(1Q22) MUTATED 89 42 62
AMP PEAK 5(1Q22) WILD-TYPE 55 73 77

Figure S36.  Get High-res Image Gene #5: 'amp_1q22' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q44' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S37.  Gene #6: 'amp_1q44' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 6(1Q44) MUTATED 83 92 10 9 24
AMP PEAK 6(1Q44) WILD-TYPE 86 213 9 0 13

Figure S37.  Get High-res Image Gene #6: 'amp_1q44' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q44' versus 'MIRSEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S38.  Gene #6: 'amp_1q44' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 6(1Q44) MUTATED 91 79 46
AMP PEAK 6(1Q44) WILD-TYPE 135 64 115

Figure S38.  Get High-res Image Gene #6: 'amp_1q44' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_2p24.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S39.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 7(2P24.3) MUTATED 79 14 12 4 12
AMP PEAK 7(2P24.3) WILD-TYPE 90 291 7 5 25

Figure S39.  Get High-res Image Gene #7: '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 = 0.012

Table S40.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 7(2P24.3) MUTATED 66 11 19
AMP PEAK 7(2P24.3) WILD-TYPE 99 78 152

Figure S40.  Get High-res Image Gene #7: 'amp_2p24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_2p24.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S41.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 7(2P24.3) MUTATED 20 83 16
AMP PEAK 7(2P24.3) WILD-TYPE 131 147 133

Figure S41.  Get High-res Image Gene #7: '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 = 0.012

Table S42.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 7(2P24.3) MUTATED 30 72 17
AMP PEAK 7(2P24.3) WILD-TYPE 186 97 128

Figure S42.  Get High-res Image Gene #7: '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 = 0.012

Table S43.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 7(2P24.3) MUTATED 80 20 19
AMP PEAK 7(2P24.3) WILD-TYPE 146 123 142

Figure S43.  Get High-res Image Gene #7: '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 = 0.012

Table S44.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 7(2P24.3) MUTATED 18 9 59 33
AMP PEAK 7(2P24.3) WILD-TYPE 123 51 64 173

Figure S44.  Get High-res Image Gene #7: 'amp_2p24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_2p24.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.072

Table S45.  Gene #7: 'amp_2p24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 7(2P24.3) MUTATED 56 20 16
AMP PEAK 7(2P24.3) WILD-TYPE 116 76 114

Figure S45.  Get High-res Image Gene #7: 'amp_2p24.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_2q13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S46.  Gene #8: 'amp_2q13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 8(2Q13) MUTATED 90 8 9 3 9
AMP PEAK 8(2Q13) WILD-TYPE 79 297 10 6 28

Figure S46.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #3: 'CN_CNMF'

'amp_2q13' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S47.  Gene #8: 'amp_2q13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 8(2Q13) MUTATED 72 14 10
AMP PEAK 8(2Q13) WILD-TYPE 93 75 161

Figure S47.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_2q13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S48.  Gene #8: 'amp_2q13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 8(2Q13) MUTATED 12 96 8
AMP PEAK 8(2Q13) WILD-TYPE 139 134 141

Figure S48.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_2q13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S49.  Gene #8: 'amp_2q13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 8(2Q13) MUTATED 21 86 9
AMP PEAK 8(2Q13) WILD-TYPE 195 83 136

Figure S49.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_2q13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S50.  Gene #8: 'amp_2q13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 8(2Q13) MUTATED 92 16 9
AMP PEAK 8(2Q13) WILD-TYPE 134 127 152

Figure S50.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_2q13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S51.  Gene #8: 'amp_2q13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 8(2Q13) MUTATED 12 5 70 30
AMP PEAK 8(2Q13) WILD-TYPE 129 55 53 176

Figure S51.  Get High-res Image Gene #8: 'amp_2q13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_2q13' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S52.  Gene #8: 'amp_2q13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 8(2Q13) MUTATED 61 22 11
AMP PEAK 8(2Q13) WILD-TYPE 111 74 119

Figure S52.  Get High-res Image Gene #8: '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 = 0.012

Table S53.  Gene #8: 'amp_2q13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 8(2Q13) MUTATED 51 8 35
AMP PEAK 8(2Q13) WILD-TYPE 93 107 104

Figure S53.  Get High-res Image Gene #8: '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 = 0.012

Table S54.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 9(3P25.1) MUTATED 62 4 1 3 12
AMP PEAK 9(3P25.1) WILD-TYPE 107 301 18 6 25

Figure S54.  Get High-res Image Gene #9: '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 = 0.012

Table S55.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 9(3P25.1) MUTATED 44 14 10
AMP PEAK 9(3P25.1) WILD-TYPE 121 75 161

Figure S55.  Get High-res Image Gene #9: 'amp_3p25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3p25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S56.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 9(3P25.1) MUTATED 4 66 11
AMP PEAK 9(3P25.1) WILD-TYPE 147 164 138

Figure S56.  Get High-res Image Gene #9: '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 = 0.012

Table S57.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 9(3P25.1) MUTATED 16 55 10
AMP PEAK 9(3P25.1) WILD-TYPE 200 114 135

Figure S57.  Get High-res Image Gene #9: '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 = 0.012

Table S58.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 9(3P25.1) MUTATED 58 11 11
AMP PEAK 9(3P25.1) WILD-TYPE 168 132 150

Figure S58.  Get High-res Image Gene #9: '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 = 0.012

Table S59.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 9(3P25.1) MUTATED 13 0 44 23
AMP PEAK 9(3P25.1) WILD-TYPE 128 60 79 183

Figure S59.  Get High-res Image Gene #9: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3p25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S60.  Gene #9: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 9(3P25.1) MUTATED 40 18 7
AMP PEAK 9(3P25.1) WILD-TYPE 132 78 123

Figure S60.  Get High-res Image Gene #9: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3p14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S61.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 10(3P14.1) MUTATED 46 3 1 3 12
AMP PEAK 10(3P14.1) WILD-TYPE 123 302 18 6 25

Figure S61.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3p14.1' versus 'METHLYATION_CNMF'

P value = 0.00023 (Fisher's exact test), Q value = 0.11

Table S62.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 10(3P14.1) MUTATED 35 10 11
AMP PEAK 10(3P14.1) WILD-TYPE 130 79 160

Figure S62.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3p14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S63.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 10(3P14.1) MUTATED 4 49 11
AMP PEAK 10(3P14.1) WILD-TYPE 147 181 138

Figure S63.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3p14.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S64.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 10(3P14.1) MUTATED 15 39 10
AMP PEAK 10(3P14.1) WILD-TYPE 201 130 135

Figure S64.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3p14.1' versus 'MIRSEQ_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S65.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 10(3P14.1) MUTATED 44 10 10
AMP PEAK 10(3P14.1) WILD-TYPE 182 133 151

Figure S65.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3p14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S66.  Gene #10: 'amp_3p14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 10(3P14.1) MUTATED 13 0 31 20
AMP PEAK 10(3P14.1) WILD-TYPE 128 60 92 186

Figure S66.  Get High-res Image Gene #10: 'amp_3p14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3q26.2' versus 'MRNA_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.03

Table S67.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
AMP PEAK 11(3Q26.2) MUTATED 1 11 1 0
AMP PEAK 11(3Q26.2) WILD-TYPE 13 6 11 10

Figure S67.  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 = 0.012

Table S68.  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 4 8 1 0 0
AMP PEAK 11(3Q26.2) WILD-TYPE 10 1 6 7 16

Figure S68.  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 = 0.012

Table S69.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 11(3Q26.2) MUTATED 141 11 3 5 15
AMP PEAK 11(3Q26.2) WILD-TYPE 28 294 16 4 22

Figure S69.  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 = 0.012

Table S70.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 11(3Q26.2) MUTATED 102 25 23
AMP PEAK 11(3Q26.2) WILD-TYPE 63 64 148

Figure S70.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3q26.2' versus 'RPPA_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.072

Table S71.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
AMP PEAK 11(3Q26.2) MUTATED 11 15 4 1 1 6
AMP PEAK 11(3Q26.2) WILD-TYPE 30 22 35 11 40 18

Figure S71.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_3q26.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S72.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 11(3Q26.2) MUTATED 8 140 23
AMP PEAK 11(3Q26.2) WILD-TYPE 143 90 126

Figure S72.  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 = 0.012

Table S73.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 11(3Q26.2) MUTATED 28 120 23
AMP PEAK 11(3Q26.2) WILD-TYPE 188 49 122

Figure S73.  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 = 0.012

Table S74.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 11(3Q26.2) MUTATED 133 16 22
AMP PEAK 11(3Q26.2) WILD-TYPE 93 127 139

Figure S74.  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 = 0.012

Table S75.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 11(3Q26.2) MUTATED 26 0 91 54
AMP PEAK 11(3Q26.2) WILD-TYPE 115 60 32 152

Figure S75.  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 = 0.012

Table S76.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 11(3Q26.2) MUTATED 85 33 25
AMP PEAK 11(3Q26.2) WILD-TYPE 87 63 105

Figure S76.  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 = 0.012

Table S77.  Gene #11: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 11(3Q26.2) MUTATED 78 20 45
AMP PEAK 11(3Q26.2) WILD-TYPE 66 95 94

Figure S77.  Get High-res Image Gene #11: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3q26.2' versus 'MRNA_CNMF'

P value = 0.00038 (Fisher's exact test), Q value = 0.17

Table S78.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
AMP PEAK 12(3Q26.2) MUTATED 1 10 1 0
AMP PEAK 12(3Q26.2) WILD-TYPE 13 7 11 10

Figure S78.  Get High-res Image Gene #12: 'amp_3q26.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_3q26.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S79.  Gene #12: '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 12(3Q26.2) MUTATED 3 8 1 0 0
AMP PEAK 12(3Q26.2) WILD-TYPE 11 1 6 7 16

Figure S79.  Get High-res Image Gene #12: '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 = 0.012

Table S80.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 12(3Q26.2) MUTATED 135 7 3 5 14
AMP PEAK 12(3Q26.2) WILD-TYPE 34 298 16 4 23

Figure S80.  Get High-res Image Gene #12: '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 = 0.012

Table S81.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 12(3Q26.2) MUTATED 101 20 20
AMP PEAK 12(3Q26.2) WILD-TYPE 64 69 151

Figure S81.  Get High-res Image Gene #12: 'amp_3q26.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3q26.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S82.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 12(3Q26.2) MUTATED 8 133 19
AMP PEAK 12(3Q26.2) WILD-TYPE 143 97 130

Figure S82.  Get High-res Image Gene #12: '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 = 0.012

Table S83.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 12(3Q26.2) MUTATED 26 115 19
AMP PEAK 12(3Q26.2) WILD-TYPE 190 54 126

Figure S83.  Get High-res Image Gene #12: '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 = 0.012

Table S84.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 12(3Q26.2) MUTATED 125 17 18
AMP PEAK 12(3Q26.2) WILD-TYPE 101 126 143

Figure S84.  Get High-res Image Gene #12: '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 = 0.012

Table S85.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 12(3Q26.2) MUTATED 22 0 88 50
AMP PEAK 12(3Q26.2) WILD-TYPE 119 60 35 156

Figure S85.  Get High-res Image Gene #12: '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 = 0.012

Table S86.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 12(3Q26.2) MUTATED 84 28 22
AMP PEAK 12(3Q26.2) WILD-TYPE 88 68 108

Figure S86.  Get High-res Image Gene #12: '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 = 0.012

Table S87.  Gene #12: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 12(3Q26.2) MUTATED 77 16 41
AMP PEAK 12(3Q26.2) WILD-TYPE 67 99 98

Figure S87.  Get High-res Image Gene #12: 'amp_3q26.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_4p16.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S88.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 13(4P16.3) MUTATED 50 2 0 0 1
AMP PEAK 13(4P16.3) WILD-TYPE 119 303 19 9 36

Figure S88.  Get High-res Image Gene #13: 'amp_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_4p16.3' versus 'METHLYATION_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S89.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 13(4P16.3) MUTATED 30 8 6
AMP PEAK 13(4P16.3) WILD-TYPE 135 81 165

Figure S89.  Get High-res Image Gene #13: 'amp_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_4p16.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S90.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 13(4P16.3) MUTATED 1 49 2
AMP PEAK 13(4P16.3) WILD-TYPE 150 181 147

Figure S90.  Get High-res Image Gene #13: '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 = 0.012

Table S91.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 13(4P16.3) MUTATED 7 42 3
AMP PEAK 13(4P16.3) WILD-TYPE 209 127 142

Figure S91.  Get High-res Image Gene #13: '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 = 0.012

Table S92.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 13(4P16.3) MUTATED 44 3 4
AMP PEAK 13(4P16.3) WILD-TYPE 182 140 157

Figure S92.  Get High-res Image Gene #13: '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 = 0.012

Table S93.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 13(4P16.3) MUTATED 5 0 33 13
AMP PEAK 13(4P16.3) WILD-TYPE 136 60 90 193

Figure S93.  Get High-res Image Gene #13: 'amp_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00046 (Fisher's exact test), Q value = 0.21

Table S94.  Gene #13: 'amp_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 13(4P16.3) MUTATED 26 4 12
AMP PEAK 13(4P16.3) WILD-TYPE 118 111 127

Figure S94.  Get High-res Image Gene #13: 'amp_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_5p15.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S95.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 14(5P15.33) MUTATED 80 4 4 1 0
AMP PEAK 14(5P15.33) WILD-TYPE 89 301 15 8 37

Figure S95.  Get High-res Image Gene #14: '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 = 0.012

Table S96.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 14(5P15.33) MUTATED 58 11 7
AMP PEAK 14(5P15.33) WILD-TYPE 107 78 164

Figure S96.  Get High-res Image Gene #14: 'amp_5p15.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_5p15.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S97.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 14(5P15.33) MUTATED 5 78 4
AMP PEAK 14(5P15.33) WILD-TYPE 146 152 145

Figure S97.  Get High-res Image Gene #14: '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 = 0.012

Table S98.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 14(5P15.33) MUTATED 16 66 5
AMP PEAK 14(5P15.33) WILD-TYPE 200 103 140

Figure S98.  Get High-res Image Gene #14: '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 = 0.012

Table S99.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 14(5P15.33) MUTATED 72 11 5
AMP PEAK 14(5P15.33) WILD-TYPE 154 132 156

Figure S99.  Get High-res Image Gene #14: '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 = 0.012

Table S100.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 14(5P15.33) MUTATED 6 4 53 25
AMP PEAK 14(5P15.33) WILD-TYPE 135 56 70 181

Figure S100.  Get High-res Image Gene #14: '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 = 0.012

Table S101.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 14(5P15.33) MUTATED 54 15 6
AMP PEAK 14(5P15.33) WILD-TYPE 118 81 124

Figure S101.  Get High-res Image Gene #14: '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 = 0.012

Table S102.  Gene #14: 'amp_5p15.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 14(5P15.33) MUTATED 47 4 24
AMP PEAK 14(5P15.33) WILD-TYPE 97 111 115

Figure S102.  Get High-res Image Gene #14: '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 = 0.012

Table S103.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 15(5Q35.3) MUTATED 51 1 4 1 0
AMP PEAK 15(5Q35.3) WILD-TYPE 118 304 15 8 37

Figure S103.  Get High-res Image Gene #15: '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 = 0.012

Table S104.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 15(5Q35.3) MUTATED 35 9 6
AMP PEAK 15(5Q35.3) WILD-TYPE 130 80 165

Figure S104.  Get High-res Image Gene #15: 'amp_5q35.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_5q35.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S105.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 15(5Q35.3) MUTATED 4 49 3
AMP PEAK 15(5Q35.3) WILD-TYPE 147 181 146

Figure S105.  Get High-res Image Gene #15: '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 = 0.012

Table S106.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 15(5Q35.3) MUTATED 11 42 3
AMP PEAK 15(5Q35.3) WILD-TYPE 205 127 142

Figure S106.  Get High-res Image Gene #15: '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 = 0.012

Table S107.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 15(5Q35.3) MUTATED 45 7 4
AMP PEAK 15(5Q35.3) WILD-TYPE 181 136 157

Figure S107.  Get High-res Image Gene #15: '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 = 0.012

Table S108.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 15(5Q35.3) MUTATED 5 4 32 15
AMP PEAK 15(5Q35.3) WILD-TYPE 136 56 91 191

Figure S108.  Get High-res Image Gene #15: 'amp_5q35.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_5q35.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00057 (Fisher's exact test), Q value = 0.25

Table S109.  Gene #15: 'amp_5q35.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 15(5Q35.3) MUTATED 30 13 5
AMP PEAK 15(5Q35.3) WILD-TYPE 142 83 125

Figure S109.  Get High-res Image Gene #15: 'amp_5q35.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6p24.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S110.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 16(6P24.2) MUTATED 95 8 1 1 12
AMP PEAK 16(6P24.2) WILD-TYPE 74 297 18 8 25

Figure S110.  Get High-res Image Gene #16: '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 = 0.012

Table S111.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 16(6P24.2) MUTATED 73 15 12
AMP PEAK 16(6P24.2) WILD-TYPE 92 74 159

Figure S111.  Get High-res Image Gene #16: 'amp_6p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6p24.2' versus 'RPPA_CNMF'

P value = 1e-04 (Fisher's exact test), Q value = 0.049

Table S112.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
AMP PEAK 16(6P24.2) MUTATED 5 13 2 1 0 3
AMP PEAK 16(6P24.2) WILD-TYPE 36 24 37 11 41 21

Figure S112.  Get High-res Image Gene #16: 'amp_6p24.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_6p24.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S113.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 16(6P24.2) MUTATED 6 96 15
AMP PEAK 16(6P24.2) WILD-TYPE 145 134 134

Figure S113.  Get High-res Image Gene #16: '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 = 0.012

Table S114.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 16(6P24.2) MUTATED 24 79 14
AMP PEAK 16(6P24.2) WILD-TYPE 192 90 131

Figure S114.  Get High-res Image Gene #16: '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 = 0.012

Table S115.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 16(6P24.2) MUTATED 86 16 12
AMP PEAK 16(6P24.2) WILD-TYPE 140 127 149

Figure S115.  Get High-res Image Gene #16: '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 = 0.012

Table S116.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 16(6P24.2) MUTATED 12 1 63 38
AMP PEAK 16(6P24.2) WILD-TYPE 129 59 60 168

Figure S116.  Get High-res Image Gene #16: 'amp_6p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6p24.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S117.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 16(6P24.2) MUTATED 58 24 14
AMP PEAK 16(6P24.2) WILD-TYPE 114 72 116

Figure S117.  Get High-res Image Gene #16: 'amp_6p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6p24.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S118.  Gene #16: 'amp_6p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 16(6P24.2) MUTATED 51 13 32
AMP PEAK 16(6P24.2) WILD-TYPE 93 102 107

Figure S118.  Get High-res Image Gene #16: 'amp_6p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S119.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 17(6P22.3) MUTATED 86 7 1 1 12
AMP PEAK 17(6P22.3) WILD-TYPE 83 298 18 8 25

Figure S119.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_6p22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S120.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 17(6P22.3) MUTATED 70 15 10
AMP PEAK 17(6P22.3) WILD-TYPE 95 74 161

Figure S120.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6p22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S121.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 17(6P22.3) MUTATED 6 86 14
AMP PEAK 17(6P22.3) WILD-TYPE 145 144 135

Figure S121.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_6p22.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S122.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 17(6P22.3) MUTATED 21 72 13
AMP PEAK 17(6P22.3) WILD-TYPE 195 97 132

Figure S122.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6p22.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S123.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 17(6P22.3) MUTATED 81 14 11
AMP PEAK 17(6P22.3) WILD-TYPE 145 129 150

Figure S123.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_6p22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S124.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 17(6P22.3) MUTATED 11 1 59 35
AMP PEAK 17(6P22.3) WILD-TYPE 130 59 64 171

Figure S124.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S125.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 17(6P22.3) MUTATED 58 21 12
AMP PEAK 17(6P22.3) WILD-TYPE 114 75 118

Figure S125.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6p22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S126.  Gene #17: 'amp_6p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 17(6P22.3) MUTATED 50 11 30
AMP PEAK 17(6P22.3) WILD-TYPE 94 104 109

Figure S126.  Get High-res Image Gene #17: 'amp_6p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6q25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S127.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 18(6Q25.1) MUTATED 65 7 3 2 11
AMP PEAK 18(6Q25.1) WILD-TYPE 104 298 16 7 26

Figure S127.  Get High-res Image Gene #18: '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 = 0.012

Table S128.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 18(6Q25.1) MUTATED 55 10 14
AMP PEAK 18(6Q25.1) WILD-TYPE 110 79 157

Figure S128.  Get High-res Image Gene #18: 'amp_6q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6q25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S129.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 18(6Q25.1) MUTATED 8 62 17
AMP PEAK 18(6Q25.1) WILD-TYPE 143 168 132

Figure S129.  Get High-res Image Gene #18: '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 = 0.012

Table S130.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 18(6Q25.1) MUTATED 22 48 17
AMP PEAK 18(6Q25.1) WILD-TYPE 194 121 128

Figure S130.  Get High-res Image Gene #18: 'amp_6q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6q25.1' versus 'MIRSEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S131.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 18(6Q25.1) MUTATED 57 19 12
AMP PEAK 18(6Q25.1) WILD-TYPE 169 124 149

Figure S131.  Get High-res Image Gene #18: '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 = 0.012

Table S132.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 18(6Q25.1) MUTATED 12 2 41 33
AMP PEAK 18(6Q25.1) WILD-TYPE 129 58 82 173

Figure S132.  Get High-res Image Gene #18: 'amp_6q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6q25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S133.  Gene #18: 'amp_6q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 18(6Q25.1) MUTATED 48 17 11
AMP PEAK 18(6Q25.1) WILD-TYPE 124 79 119

Figure S133.  Get High-res Image Gene #18: 'amp_6q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_7q31.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S134.  Gene #19: 'amp_7q31.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 19(7Q31.2) MUTATED 53 15 13 2 10
AMP PEAK 19(7Q31.2) WILD-TYPE 116 290 6 7 27

Figure S134.  Get High-res Image Gene #19: 'amp_7q31.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_7q31.2' versus 'METHLYATION_CNMF'

P value = 0.00014 (Fisher's exact test), Q value = 0.068

Table S135.  Gene #19: 'amp_7q31.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 19(7Q31.2) MUTATED 45 8 21
AMP PEAK 19(7Q31.2) WILD-TYPE 120 81 150

Figure S135.  Get High-res Image Gene #19: 'amp_7q31.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_7q31.2' versus 'MRNASEQ_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.11

Table S136.  Gene #19: 'amp_7q31.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 19(7Q31.2) MUTATED 15 56 17
AMP PEAK 19(7Q31.2) WILD-TYPE 136 174 132

Figure S136.  Get High-res Image Gene #19: 'amp_7q31.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_7q31.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.081

Table S137.  Gene #19: 'amp_7q31.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 19(7Q31.2) MUTATED 25 45 18
AMP PEAK 19(7Q31.2) WILD-TYPE 191 124 127

Figure S137.  Get High-res Image Gene #19: 'amp_7q31.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_7q31.2' versus 'MIRSEQ_CNMF'

P value = 0.00047 (Fisher's exact test), Q value = 0.21

Table S138.  Gene #19: 'amp_7q31.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 19(7Q31.2) MUTATED 56 21 16
AMP PEAK 19(7Q31.2) WILD-TYPE 170 122 145

Figure S138.  Get High-res Image Gene #19: 'amp_7q31.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8p11.22' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S139.  Gene #20: 'amp_8p11.22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 20(8P11.22) MUTATED 50 29 8 2 37
AMP PEAK 20(8P11.22) WILD-TYPE 119 276 11 7 0

Figure S139.  Get High-res Image Gene #20: 'amp_8p11.22' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S140.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 21(8P11.21) MUTATED 87 29 8 2 36
AMP PEAK 21(8P11.21) WILD-TYPE 82 276 11 7 1

Figure S140.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S141.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 21(8P11.21) MUTATED 30 98 33
AMP PEAK 21(8P11.21) WILD-TYPE 121 132 116

Figure S141.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8p11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S142.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 21(8P11.21) MUTATED 50 77 34
AMP PEAK 21(8P11.21) WILD-TYPE 166 92 111

Figure S142.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_CNMF'

P value = 0.00012 (Fisher's exact test), Q value = 0.059

Table S143.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 21(8P11.21) MUTATED 91 35 33
AMP PEAK 21(8P11.21) WILD-TYPE 135 108 128

Figure S143.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_8p11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S144.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 21(8P11.21) MUTATED 32 7 60 60
AMP PEAK 21(8P11.21) WILD-TYPE 109 53 63 146

Figure S144.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.03

Table S145.  Gene #21: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 21(8P11.21) MUTATED 75 30 26
AMP PEAK 21(8P11.21) WILD-TYPE 97 66 104

Figure S145.  Get High-res Image Gene #21: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8q24.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S146.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 22(8Q24.21) MUTATED 126 35 8 3 37
AMP PEAK 22(8Q24.21) WILD-TYPE 43 270 11 6 0

Figure S146.  Get High-res Image Gene #22: '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 = 0.012

Table S147.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 22(8Q24.21) MUTATED 101 32 48
AMP PEAK 22(8Q24.21) WILD-TYPE 64 57 123

Figure S147.  Get High-res Image Gene #22: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8q24.21' versus 'RPPA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S148.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
AMP PEAK 22(8Q24.21) MUTATED 12 14 8 2 2 14
AMP PEAK 22(8Q24.21) WILD-TYPE 29 23 31 10 39 10

Figure S148.  Get High-res Image Gene #22: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8q24.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S149.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 22(8Q24.21) MUTATED 30 137 39
AMP PEAK 22(8Q24.21) WILD-TYPE 121 93 110

Figure S149.  Get High-res Image Gene #22: '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 = 0.012

Table S150.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 22(8Q24.21) MUTATED 55 111 40
AMP PEAK 22(8Q24.21) WILD-TYPE 161 58 105

Figure S150.  Get High-res Image Gene #22: '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 = 0.012

Table S151.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 22(8Q24.21) MUTATED 131 37 38
AMP PEAK 22(8Q24.21) WILD-TYPE 95 106 123

Figure S151.  Get High-res Image Gene #22: '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 = 0.012

Table S152.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 22(8Q24.21) MUTATED 37 8 85 76
AMP PEAK 22(8Q24.21) WILD-TYPE 104 52 38 130

Figure S152.  Get High-res Image Gene #22: '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 = 0.012

Table S153.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 22(8Q24.21) MUTATED 95 41 33
AMP PEAK 22(8Q24.21) WILD-TYPE 77 55 97

Figure S153.  Get High-res Image Gene #22: '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 = 0.012

Table S154.  Gene #22: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 22(8Q24.21) MUTATED 83 30 56
AMP PEAK 22(8Q24.21) WILD-TYPE 61 85 83

Figure S154.  Get High-res Image Gene #22: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8q24.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S155.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 23(8Q24.21) MUTATED 127 40 8 3 37
AMP PEAK 23(8Q24.21) WILD-TYPE 42 265 11 6 0

Figure S155.  Get High-res Image Gene #23: '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 = 0.012

Table S156.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 23(8Q24.21) MUTATED 101 31 53
AMP PEAK 23(8Q24.21) WILD-TYPE 64 58 118

Figure S156.  Get High-res Image Gene #23: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8q24.21' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S157.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
AMP PEAK 23(8Q24.21) MUTATED 12 17 7 2 2 16
AMP PEAK 23(8Q24.21) WILD-TYPE 29 20 32 10 39 8

Figure S157.  Get High-res Image Gene #23: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8q24.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S158.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 23(8Q24.21) MUTATED 33 139 40
AMP PEAK 23(8Q24.21) WILD-TYPE 118 91 109

Figure S158.  Get High-res Image Gene #23: '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 = 0.012

Table S159.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 23(8Q24.21) MUTATED 57 114 41
AMP PEAK 23(8Q24.21) WILD-TYPE 159 55 104

Figure S159.  Get High-res Image Gene #23: '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 = 0.012

Table S160.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 23(8Q24.21) MUTATED 136 37 38
AMP PEAK 23(8Q24.21) WILD-TYPE 90 106 123

Figure S160.  Get High-res Image Gene #23: '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 = 0.012

Table S161.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 23(8Q24.21) MUTATED 40 10 86 75
AMP PEAK 23(8Q24.21) WILD-TYPE 101 50 37 131

Figure S161.  Get High-res Image Gene #23: '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 = 0.012

Table S162.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 23(8Q24.21) MUTATED 98 40 36
AMP PEAK 23(8Q24.21) WILD-TYPE 74 56 94

Figure S162.  Get High-res Image Gene #23: '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 = 0.012

Table S163.  Gene #23: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 23(8Q24.21) MUTATED 88 32 54
AMP PEAK 23(8Q24.21) WILD-TYPE 56 83 85

Figure S163.  Get High-res Image Gene #23: '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 = 0.012

Table S164.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 24(9P24.2) MUTATED 59 4 1 0 1
AMP PEAK 24(9P24.2) WILD-TYPE 110 301 18 9 36

Figure S164.  Get High-res Image Gene #24: '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 = 0.012

Table S165.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 24(9P24.2) MUTATED 42 7 5
AMP PEAK 24(9P24.2) WILD-TYPE 123 82 166

Figure S165.  Get High-res Image Gene #24: 'amp_9p24.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_9p24.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S166.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 24(9P24.2) MUTATED 3 57 5
AMP PEAK 24(9P24.2) WILD-TYPE 148 173 144

Figure S166.  Get High-res Image Gene #24: '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 = 0.012

Table S167.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 24(9P24.2) MUTATED 15 46 4
AMP PEAK 24(9P24.2) WILD-TYPE 201 123 141

Figure S167.  Get High-res Image Gene #24: '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 = 0.012

Table S168.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 24(9P24.2) MUTATED 55 7 2
AMP PEAK 24(9P24.2) WILD-TYPE 171 136 159

Figure S168.  Get High-res Image Gene #24: '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 = 0.012

Table S169.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 24(9P24.2) MUTATED 4 2 39 19
AMP PEAK 24(9P24.2) WILD-TYPE 137 58 84 187

Figure S169.  Get High-res Image Gene #24: 'amp_9p24.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_9p24.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00018 (Fisher's exact test), Q value = 0.085

Table S170.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 24(9P24.2) MUTATED 35 11 6
AMP PEAK 24(9P24.2) WILD-TYPE 137 85 124

Figure S170.  Get High-res Image Gene #24: 'amp_9p24.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_9p24.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00015 (Fisher's exact test), Q value = 0.072

Table S171.  Gene #24: 'amp_9p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 24(9P24.2) MUTATED 31 5 16
AMP PEAK 24(9P24.2) WILD-TYPE 113 110 123

Figure S171.  Get High-res Image Gene #24: 'amp_9p24.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_9q34.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S172.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 25(9Q34.3) MUTATED 35 2 0 1 1
AMP PEAK 25(9Q34.3) WILD-TYPE 134 303 19 8 36

Figure S172.  Get High-res Image Gene #25: 'amp_9q34.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_9q34.3' versus 'METHLYATION_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.03

Table S173.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 25(9Q34.3) MUTATED 22 6 2
AMP PEAK 25(9Q34.3) WILD-TYPE 143 83 169

Figure S173.  Get High-res Image Gene #25: 'amp_9q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_9q34.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S174.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 25(9Q34.3) MUTATED 3 34 1
AMP PEAK 25(9Q34.3) WILD-TYPE 148 196 148

Figure S174.  Get High-res Image Gene #25: '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 = 0.012

Table S175.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 25(9Q34.3) MUTATED 4 32 2
AMP PEAK 25(9Q34.3) WILD-TYPE 212 137 143

Figure S175.  Get High-res Image Gene #25: 'amp_9q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_9q34.3' versus 'MIRSEQ_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S176.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 25(9Q34.3) MUTATED 28 4 3
AMP PEAK 25(9Q34.3) WILD-TYPE 198 139 158

Figure S176.  Get High-res Image Gene #25: '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 = 0.012

Table S177.  Gene #25: 'amp_9q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 25(9Q34.3) MUTATED 2 1 23 9
AMP PEAK 25(9Q34.3) WILD-TYPE 139 59 100 197

Figure S177.  Get High-res Image Gene #25: 'amp_9q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_10q22.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S178.  Gene #26: 'amp_10q22.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 26(10Q22.2) MUTATED 66 45 8 4 20
AMP PEAK 26(10Q22.2) WILD-TYPE 103 260 11 5 17

Figure S178.  Get High-res Image Gene #26: 'amp_10q22.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S179.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 27(11P11.2) MUTATED 43 1 4 0 3
AMP PEAK 27(11P11.2) WILD-TYPE 126 304 15 9 34

Figure S179.  Get High-res Image Gene #27: '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 = 0.012

Table S180.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 27(11P11.2) MUTATED 30 9 4
AMP PEAK 27(11P11.2) WILD-TYPE 135 80 167

Figure S180.  Get High-res Image Gene #27: 'amp_11p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S181.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 27(11P11.2) MUTATED 3 41 6
AMP PEAK 27(11P11.2) WILD-TYPE 148 189 143

Figure S181.  Get High-res Image Gene #27: '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 = 0.012

Table S182.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 27(11P11.2) MUTATED 8 36 6
AMP PEAK 27(11P11.2) WILD-TYPE 208 133 139

Figure S182.  Get High-res Image Gene #27: '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 = 0.012

Table S183.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 27(11P11.2) MUTATED 41 3 6
AMP PEAK 27(11P11.2) WILD-TYPE 185 140 155

Figure S183.  Get High-res Image Gene #27: '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 = 0.012

Table S184.  Gene #27: 'amp_11p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 27(11P11.2) MUTATED 4 2 31 13
AMP PEAK 27(11P11.2) WILD-TYPE 137 58 92 193

Figure S184.  Get High-res Image Gene #27: 'amp_11p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q13.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S185.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 28(11Q13.2) MUTATED 59 5 5 0 5
AMP PEAK 28(11Q13.2) WILD-TYPE 110 300 14 9 32

Figure S185.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q13.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S186.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 28(11Q13.2) MUTATED 43 8 12
AMP PEAK 28(11Q13.2) WILD-TYPE 122 81 159

Figure S186.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S187.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 28(11Q13.2) MUTATED 5 53 15
AMP PEAK 28(11Q13.2) WILD-TYPE 146 177 134

Figure S187.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11q13.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S188.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 28(11Q13.2) MUTATED 17 41 15
AMP PEAK 28(11Q13.2) WILD-TYPE 199 128 130

Figure S188.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11q13.2' versus 'MIRSEQ_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S189.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 28(11Q13.2) MUTATED 48 9 15
AMP PEAK 28(11Q13.2) WILD-TYPE 178 134 146

Figure S189.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q13.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S190.  Gene #28: 'amp_11q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 28(11Q13.2) MUTATED 12 2 34 24
AMP PEAK 28(11Q13.2) WILD-TYPE 129 58 89 182

Figure S190.  Get High-res Image Gene #28: 'amp_11q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S191.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 29(11Q14.1) MUTATED 47 3 4 0 5
AMP PEAK 29(11Q14.1) WILD-TYPE 122 302 15 9 32

Figure S191.  Get High-res Image Gene #29: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q14.1' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S192.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 29(11Q14.1) MUTATED 35 7 8
AMP PEAK 29(11Q14.1) WILD-TYPE 130 82 163

Figure S192.  Get High-res Image Gene #29: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q14.1' versus 'MRNASEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S193.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 29(11Q14.1) MUTATED 5 44 9
AMP PEAK 29(11Q14.1) WILD-TYPE 146 186 140

Figure S193.  Get High-res Image Gene #29: '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 = 0.012

Table S194.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 29(11Q14.1) MUTATED 12 37 9
AMP PEAK 29(11Q14.1) WILD-TYPE 204 132 136

Figure S194.  Get High-res Image Gene #29: '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 = 0.016

Table S195.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 29(11Q14.1) MUTATED 41 6 12
AMP PEAK 29(11Q14.1) WILD-TYPE 185 137 149

Figure S195.  Get High-res Image Gene #29: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S196.  Gene #29: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 29(11Q14.1) MUTATED 8 2 29 20
AMP PEAK 29(11Q14.1) WILD-TYPE 133 58 94 186

Figure S196.  Get High-res Image Gene #29: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12p12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S197.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 30(12P12.1) MUTATED 61 16 7 3 6
AMP PEAK 30(12P12.1) WILD-TYPE 108 289 12 6 31

Figure S197.  Get High-res Image Gene #30: '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 = 0.012

Table S198.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 30(12P12.1) MUTATED 55 12 10
AMP PEAK 30(12P12.1) WILD-TYPE 110 77 161

Figure S198.  Get High-res Image Gene #30: 'amp_12p12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12p12.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S199.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 30(12P12.1) MUTATED 12 67 11
AMP PEAK 30(12P12.1) WILD-TYPE 139 163 138

Figure S199.  Get High-res Image Gene #30: '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 = 0.012

Table S200.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 30(12P12.1) MUTATED 22 56 12
AMP PEAK 30(12P12.1) WILD-TYPE 194 113 133

Figure S200.  Get High-res Image Gene #30: '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 = 0.012

Table S201.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 30(12P12.1) MUTATED 65 16 12
AMP PEAK 30(12P12.1) WILD-TYPE 161 127 149

Figure S201.  Get High-res Image Gene #30: '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 = 0.012

Table S202.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 30(12P12.1) MUTATED 13 6 46 28
AMP PEAK 30(12P12.1) WILD-TYPE 128 54 77 178

Figure S202.  Get High-res Image Gene #30: 'amp_12p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12p12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00044 (Fisher's exact test), Q value = 0.2

Table S203.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 30(12P12.1) MUTATED 47 13 14
AMP PEAK 30(12P12.1) WILD-TYPE 125 83 116

Figure S203.  Get High-res Image Gene #30: 'amp_12p12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12p12.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S204.  Gene #30: 'amp_12p12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 30(12P12.1) MUTATED 44 10 20
AMP PEAK 30(12P12.1) WILD-TYPE 100 105 119

Figure S204.  Get High-res Image Gene #30: '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 = 0.012

Table S205.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 31(12Q13.11) MUTATED 59 13 7 3 5
AMP PEAK 31(12Q13.11) WILD-TYPE 110 292 12 6 32

Figure S205.  Get High-res Image Gene #31: '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 = 0.012

Table S206.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 31(12Q13.11) MUTATED 49 15 7
AMP PEAK 31(12Q13.11) WILD-TYPE 116 74 164

Figure S206.  Get High-res Image Gene #31: 'amp_12q13.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12q13.11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S207.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 31(12Q13.11) MUTATED 9 66 10
AMP PEAK 31(12Q13.11) WILD-TYPE 142 164 139

Figure S207.  Get High-res Image Gene #31: '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 = 0.012

Table S208.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 31(12Q13.11) MUTATED 18 57 10
AMP PEAK 31(12Q13.11) WILD-TYPE 198 112 135

Figure S208.  Get High-res Image Gene #31: '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 = 0.012

Table S209.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 31(12Q13.11) MUTATED 64 12 11
AMP PEAK 31(12Q13.11) WILD-TYPE 162 131 150

Figure S209.  Get High-res Image Gene #31: '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 = 0.012

Table S210.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 31(12Q13.11) MUTATED 12 4 47 24
AMP PEAK 31(12Q13.11) WILD-TYPE 129 56 76 182

Figure S210.  Get High-res Image Gene #31: 'amp_12q13.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12q13.11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00044 (Fisher's exact test), Q value = 0.2

Table S211.  Gene #31: 'amp_12q13.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 31(12Q13.11) MUTATED 37 9 20
AMP PEAK 31(12Q13.11) WILD-TYPE 107 106 119

Figure S211.  Get High-res Image Gene #31: '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 = 0.012

Table S212.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 32(12Q13.2) MUTATED 68 16 6 3 7
AMP PEAK 32(12Q13.2) WILD-TYPE 101 289 13 6 30

Figure S212.  Get High-res Image Gene #32: '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 = 0.012

Table S213.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 32(12Q13.2) MUTATED 55 14 13
AMP PEAK 32(12Q13.2) WILD-TYPE 110 75 158

Figure S213.  Get High-res Image Gene #32: 'amp_12q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12q13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S214.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 32(12Q13.2) MUTATED 9 74 14
AMP PEAK 32(12Q13.2) WILD-TYPE 142 156 135

Figure S214.  Get High-res Image Gene #32: '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 = 0.012

Table S215.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 32(12Q13.2) MUTATED 22 61 14
AMP PEAK 32(12Q13.2) WILD-TYPE 194 108 131

Figure S215.  Get High-res Image Gene #32: '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 = 0.012

Table S216.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 32(12Q13.2) MUTATED 71 13 14
AMP PEAK 32(12Q13.2) WILD-TYPE 155 130 147

Figure S216.  Get High-res Image Gene #32: '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 = 0.012

Table S217.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 32(12Q13.2) MUTATED 15 4 52 27
AMP PEAK 32(12Q13.2) WILD-TYPE 126 56 71 179

Figure S217.  Get High-res Image Gene #32: 'amp_12q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12q13.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S218.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 32(12Q13.2) MUTATED 53 12 13
AMP PEAK 32(12Q13.2) WILD-TYPE 119 84 117

Figure S218.  Get High-res Image Gene #32: 'amp_12q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12q13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00025 (Fisher's exact test), Q value = 0.12

Table S219.  Gene #32: 'amp_12q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 32(12Q13.2) MUTATED 44 13 21
AMP PEAK 32(12Q13.2) WILD-TYPE 100 102 118

Figure S219.  Get High-res Image Gene #32: '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 = 0.012

Table S220.  Gene #33: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 33(13Q34) MUTATED 52 3 0 1 2
AMP PEAK 33(13Q34) WILD-TYPE 117 302 19 8 35

Figure S220.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

'amp_13q34' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S221.  Gene #33: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 33(13Q34) MUTATED 38 11 4
AMP PEAK 33(13Q34) WILD-TYPE 127 78 167

Figure S221.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_13q34' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S222.  Gene #33: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 33(13Q34) MUTATED 3 52 3
AMP PEAK 33(13Q34) WILD-TYPE 148 178 146

Figure S222.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_13q34' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S223.  Gene #33: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 33(13Q34) MUTATED 5 51 2
AMP PEAK 33(13Q34) WILD-TYPE 211 118 143

Figure S223.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S224.  Gene #33: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 33(13Q34) MUTATED 52 2 4
AMP PEAK 33(13Q34) WILD-TYPE 174 141 157

Figure S224.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_13q34' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S225.  Gene #33: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 33(13Q34) MUTATED 5 0 40 13
AMP PEAK 33(13Q34) WILD-TYPE 136 60 83 193

Figure S225.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00047 (Fisher's exact test), Q value = 0.21

Table S226.  Gene #33: 'amp_13q34' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 33(13Q34) MUTATED 33 13 6
AMP PEAK 33(13Q34) WILD-TYPE 139 83 124

Figure S226.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_13q34' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S227.  Gene #33: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 33(13Q34) MUTATED 32 3 17
AMP PEAK 33(13Q34) WILD-TYPE 112 112 122

Figure S227.  Get High-res Image Gene #33: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_14q24.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S228.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 34(14Q24.3) MUTATED 52 4 2 0 6
AMP PEAK 34(14Q24.3) WILD-TYPE 117 301 17 9 31

Figure S228.  Get High-res Image Gene #34: 'amp_14q24.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_14q24.3' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S229.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 34(14Q24.3) MUTATED 37 9 8
AMP PEAK 34(14Q24.3) WILD-TYPE 128 80 163

Figure S229.  Get High-res Image Gene #34: 'amp_14q24.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_14q24.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S230.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 34(14Q24.3) MUTATED 1 54 7
AMP PEAK 34(14Q24.3) WILD-TYPE 150 176 142

Figure S230.  Get High-res Image Gene #34: '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 = 0.012

Table S231.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 34(14Q24.3) MUTATED 7 48 7
AMP PEAK 34(14Q24.3) WILD-TYPE 209 121 138

Figure S231.  Get High-res Image Gene #34: '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 = 0.012

Table S232.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 34(14Q24.3) MUTATED 46 7 9
AMP PEAK 34(14Q24.3) WILD-TYPE 180 136 152

Figure S232.  Get High-res Image Gene #34: '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 = 0.012

Table S233.  Gene #34: 'amp_14q24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 34(14Q24.3) MUTATED 9 2 36 15
AMP PEAK 34(14Q24.3) WILD-TYPE 132 58 87 191

Figure S233.  Get High-res Image Gene #34: 'amp_14q24.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_14q32.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S234.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 35(14Q32.33) MUTATED 67 4 2 0 6
AMP PEAK 35(14Q32.33) WILD-TYPE 102 301 17 9 31

Figure S234.  Get High-res Image Gene #35: '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 = 0.012

Table S235.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 35(14Q32.33) MUTATED 48 11 9
AMP PEAK 35(14Q32.33) WILD-TYPE 117 78 162

Figure S235.  Get High-res Image Gene #35: 'amp_14q32.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_14q32.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S236.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 35(14Q32.33) MUTATED 2 60 13
AMP PEAK 35(14Q32.33) WILD-TYPE 149 170 136

Figure S236.  Get High-res Image Gene #35: '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 = 0.012

Table S237.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 35(14Q32.33) MUTATED 13 49 13
AMP PEAK 35(14Q32.33) WILD-TYPE 203 120 132

Figure S237.  Get High-res Image Gene #35: '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 = 0.012

Table S238.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 35(14Q32.33) MUTATED 57 7 14
AMP PEAK 35(14Q32.33) WILD-TYPE 169 136 147

Figure S238.  Get High-res Image Gene #35: '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 = 0.012

Table S239.  Gene #35: 'amp_14q32.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 35(14Q32.33) MUTATED 11 2 42 23
AMP PEAK 35(14Q32.33) WILD-TYPE 130 58 81 183

Figure S239.  Get High-res Image Gene #35: 'amp_14q32.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_15q26.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S240.  Gene #36: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 36(15Q26.3) MUTATED 33 2 1 0 2
AMP PEAK 36(15Q26.3) WILD-TYPE 136 303 18 9 35

Figure S240.  Get High-res Image Gene #36: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S241.  Gene #36: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 36(15Q26.3) MUTATED 3 32 3
AMP PEAK 36(15Q26.3) WILD-TYPE 148 198 146

Figure S241.  Get High-res Image Gene #36: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S242.  Gene #36: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 36(15Q26.3) MUTATED 9 26 3
AMP PEAK 36(15Q26.3) WILD-TYPE 207 143 142

Figure S242.  Get High-res Image Gene #36: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_15q26.3' versus 'MIRSEQ_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S243.  Gene #36: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 36(15Q26.3) MUTATED 30 5 3
AMP PEAK 36(15Q26.3) WILD-TYPE 196 138 158

Figure S243.  Get High-res Image Gene #36: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_15q26.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.035

Table S244.  Gene #36: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 36(15Q26.3) MUTATED 4 1 21 12
AMP PEAK 36(15Q26.3) WILD-TYPE 137 59 102 194

Figure S244.  Get High-res Image Gene #36: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_16p11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S245.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 37(16P11.2) MUTATED 61 1 1 0 3
AMP PEAK 37(16P11.2) WILD-TYPE 108 304 18 9 34

Figure S245.  Get High-res Image Gene #37: '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 = 0.012

Table S246.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 37(16P11.2) MUTATED 39 10 8
AMP PEAK 37(16P11.2) WILD-TYPE 126 79 163

Figure S246.  Get High-res Image Gene #37: 'amp_16p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_16p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S247.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 37(16P11.2) MUTATED 5 57 4
AMP PEAK 37(16P11.2) WILD-TYPE 146 173 145

Figure S247.  Get High-res Image Gene #37: '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 = 0.012

Table S248.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 37(16P11.2) MUTATED 12 50 4
AMP PEAK 37(16P11.2) WILD-TYPE 204 119 141

Figure S248.  Get High-res Image Gene #37: '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 = 0.012

Table S249.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 37(16P11.2) MUTATED 52 6 5
AMP PEAK 37(16P11.2) WILD-TYPE 174 137 156

Figure S249.  Get High-res Image Gene #37: '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 = 0.012

Table S250.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 37(16P11.2) MUTATED 5 3 39 16
AMP PEAK 37(16P11.2) WILD-TYPE 136 57 84 190

Figure S250.  Get High-res Image Gene #37: 'amp_16p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_16p11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00046 (Fisher's exact test), Q value = 0.21

Table S251.  Gene #37: 'amp_16p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 37(16P11.2) MUTATED 29 5 18
AMP PEAK 37(16P11.2) WILD-TYPE 115 110 121

Figure S251.  Get High-res Image Gene #37: '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 = 0.012

Table S252.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 38(17Q11.2) MUTATED 64 4 0 1 2
AMP PEAK 38(17Q11.2) WILD-TYPE 105 301 19 8 35

Figure S252.  Get High-res Image Gene #38: '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 = 0.012

Table S253.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 38(17Q11.2) MUTATED 54 6 3
AMP PEAK 38(17Q11.2) WILD-TYPE 111 83 168

Figure S253.  Get High-res Image Gene #38: 'amp_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S254.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 38(17Q11.2) MUTATED 2 63 4
AMP PEAK 38(17Q11.2) WILD-TYPE 149 167 145

Figure S254.  Get High-res Image Gene #38: '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 = 0.012

Table S255.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 38(17Q11.2) MUTATED 8 58 3
AMP PEAK 38(17Q11.2) WILD-TYPE 208 111 142

Figure S255.  Get High-res Image Gene #38: '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 = 0.012

Table S256.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 38(17Q11.2) MUTATED 58 8 2
AMP PEAK 38(17Q11.2) WILD-TYPE 168 135 159

Figure S256.  Get High-res Image Gene #38: '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 = 0.012

Table S257.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 38(17Q11.2) MUTATED 4 1 46 17
AMP PEAK 38(17Q11.2) WILD-TYPE 137 59 77 189

Figure S257.  Get High-res Image Gene #38: 'amp_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S258.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 38(17Q11.2) MUTATED 41 12 5
AMP PEAK 38(17Q11.2) WILD-TYPE 131 84 125

Figure S258.  Get High-res Image Gene #38: '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 = 0.012

Table S259.  Gene #38: 'amp_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 38(17Q11.2) MUTATED 37 5 16
AMP PEAK 38(17Q11.2) WILD-TYPE 107 110 123

Figure S259.  Get High-res Image Gene #38: 'amp_17q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S260.  Gene #39: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 39(17Q12) MUTATED 67 5 0 1 2
AMP PEAK 39(17Q12) WILD-TYPE 102 300 19 8 35

Figure S260.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S261.  Gene #39: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 39(17Q12) MUTATED 53 8 2
AMP PEAK 39(17Q12) WILD-TYPE 112 81 169

Figure S261.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S262.  Gene #39: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 39(17Q12) MUTATED 2 68 3
AMP PEAK 39(17Q12) WILD-TYPE 149 162 146

Figure S262.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S263.  Gene #39: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 39(17Q12) MUTATED 7 64 2
AMP PEAK 39(17Q12) WILD-TYPE 209 105 143

Figure S263.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S264.  Gene #39: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 39(17Q12) MUTATED 66 4 3
AMP PEAK 39(17Q12) WILD-TYPE 160 139 158

Figure S264.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S265.  Gene #39: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 39(17Q12) MUTATED 4 2 53 14
AMP PEAK 39(17Q12) WILD-TYPE 137 58 70 192

Figure S265.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S266.  Gene #39: 'amp_17q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 39(17Q12) MUTATED 40 13 7
AMP PEAK 39(17Q12) WILD-TYPE 132 83 123

Figure S266.  Get High-res Image Gene #39: '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 = 0.012

Table S267.  Gene #39: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 39(17Q12) MUTATED 37 3 20
AMP PEAK 39(17Q12) WILD-TYPE 107 112 119

Figure S267.  Get High-res Image Gene #39: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q25.1' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S268.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
AMP PEAK 40(17Q25.1) MUTATED 0 10 1 0
AMP PEAK 40(17Q25.1) WILD-TYPE 14 7 11 10

Figure S268.  Get High-res Image Gene #40: 'amp_17q25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_17q25.1' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S269.  Gene #40: '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 40(17Q25.1) MUTATED 2 8 1 0 0
AMP PEAK 40(17Q25.1) WILD-TYPE 12 1 6 7 16

Figure S269.  Get High-res Image Gene #40: '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 = 0.012

Table S270.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 40(17Q25.1) MUTATED 94 5 1 1 4
AMP PEAK 40(17Q25.1) WILD-TYPE 75 300 18 8 33

Figure S270.  Get High-res Image Gene #40: '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 = 0.012

Table S271.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 40(17Q25.1) MUTATED 64 15 6
AMP PEAK 40(17Q25.1) WILD-TYPE 101 74 165

Figure S271.  Get High-res Image Gene #40: 'amp_17q25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q25.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S272.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 40(17Q25.1) MUTATED 5 88 9
AMP PEAK 40(17Q25.1) WILD-TYPE 146 142 140

Figure S272.  Get High-res Image Gene #40: '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 = 0.012

Table S273.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 40(17Q25.1) MUTATED 12 82 8
AMP PEAK 40(17Q25.1) WILD-TYPE 204 87 137

Figure S273.  Get High-res Image Gene #40: '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 = 0.012

Table S274.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 40(17Q25.1) MUTATED 84 9 8
AMP PEAK 40(17Q25.1) WILD-TYPE 142 134 153

Figure S274.  Get High-res Image Gene #40: '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 = 0.012

Table S275.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 40(17Q25.1) MUTATED 7 2 63 29
AMP PEAK 40(17Q25.1) WILD-TYPE 134 58 60 177

Figure S275.  Get High-res Image Gene #40: '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 = 0.012

Table S276.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 40(17Q25.1) MUTATED 53 21 7
AMP PEAK 40(17Q25.1) WILD-TYPE 119 75 123

Figure S276.  Get High-res Image Gene #40: 'amp_17q25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_17q25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S277.  Gene #40: 'amp_17q25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 40(17Q25.1) MUTATED 42 9 30
AMP PEAK 40(17Q25.1) WILD-TYPE 102 106 109

Figure S277.  Get High-res Image Gene #40: '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 = 0.012

Table S278.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 41(18P11.31) MUTATED 87 5 3 0 1
AMP PEAK 41(18P11.31) WILD-TYPE 82 300 16 9 36

Figure S278.  Get High-res Image Gene #41: '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 = 0.012

Table S279.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 41(18P11.31) MUTATED 62 16 7
AMP PEAK 41(18P11.31) WILD-TYPE 103 73 164

Figure S279.  Get High-res Image Gene #41: 'amp_18p11.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_18p11.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S280.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 41(18P11.31) MUTATED 3 84 8
AMP PEAK 41(18P11.31) WILD-TYPE 148 146 141

Figure S280.  Get High-res Image Gene #41: '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 = 0.012

Table S281.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 41(18P11.31) MUTATED 10 77 8
AMP PEAK 41(18P11.31) WILD-TYPE 206 92 137

Figure S281.  Get High-res Image Gene #41: '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 = 0.012

Table S282.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 41(18P11.31) MUTATED 81 7 7
AMP PEAK 41(18P11.31) WILD-TYPE 145 136 154

Figure S282.  Get High-res Image Gene #41: '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 = 0.012

Table S283.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 41(18P11.31) MUTATED 9 1 64 21
AMP PEAK 41(18P11.31) WILD-TYPE 132 59 59 185

Figure S283.  Get High-res Image Gene #41: 'amp_18p11.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_18p11.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S284.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 41(18P11.31) MUTATED 52 23 7
AMP PEAK 41(18P11.31) WILD-TYPE 120 73 123

Figure S284.  Get High-res Image Gene #41: '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 = 0.012

Table S285.  Gene #41: 'amp_18p11.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 41(18P11.31) MUTATED 46 6 30
AMP PEAK 41(18P11.31) WILD-TYPE 98 109 109

Figure S285.  Get High-res Image Gene #41: '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 = 0.012

Table S286.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 42(18Q11.2) MUTATED 63 3 2 0 1
AMP PEAK 42(18Q11.2) WILD-TYPE 106 302 17 9 36

Figure S286.  Get High-res Image Gene #42: '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 = 0.012

Table S287.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 42(18Q11.2) MUTATED 47 11 3
AMP PEAK 42(18Q11.2) WILD-TYPE 118 78 168

Figure S287.  Get High-res Image Gene #42: 'amp_18q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_18q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S288.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 42(18Q11.2) MUTATED 3 62 3
AMP PEAK 42(18Q11.2) WILD-TYPE 148 168 146

Figure S288.  Get High-res Image Gene #42: '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 = 0.012

Table S289.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 42(18Q11.2) MUTATED 8 57 3
AMP PEAK 42(18Q11.2) WILD-TYPE 208 112 142

Figure S289.  Get High-res Image Gene #42: '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 = 0.012

Table S290.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 42(18Q11.2) MUTATED 59 7 2
AMP PEAK 42(18Q11.2) WILD-TYPE 167 136 159

Figure S290.  Get High-res Image Gene #42: '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 = 0.012

Table S291.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 42(18Q11.2) MUTATED 3 1 44 20
AMP PEAK 42(18Q11.2) WILD-TYPE 138 59 79 186

Figure S291.  Get High-res Image Gene #42: '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 = 0.012

Table S292.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 42(18Q11.2) MUTATED 43 13 1
AMP PEAK 42(18Q11.2) WILD-TYPE 129 83 129

Figure S292.  Get High-res Image Gene #42: '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 = 0.012

Table S293.  Gene #42: 'amp_18q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 42(18Q11.2) MUTATED 35 1 21
AMP PEAK 42(18Q11.2) WILD-TYPE 109 114 118

Figure S293.  Get High-res Image Gene #42: 'amp_18q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19p13.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-04 (Fisher's exact test), Q value = 0.049

Table S294.  Gene #43: '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 43(19P13.2) MUTATED 2 6 0 0 0
AMP PEAK 43(19P13.2) WILD-TYPE 12 3 7 7 16

Figure S294.  Get High-res Image Gene #43: '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 = 0.012

Table S295.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 43(19P13.2) MUTATED 95 0 1 0 3
AMP PEAK 43(19P13.2) WILD-TYPE 74 305 18 9 34

Figure S295.  Get High-res Image Gene #43: '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 = 0.012

Table S296.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 43(19P13.2) MUTATED 65 15 7
AMP PEAK 43(19P13.2) WILD-TYPE 100 74 164

Figure S296.  Get High-res Image Gene #43: 'amp_19p13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19p13.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00047 (Fisher's exact test), Q value = 0.21

Table S297.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 67 67 43 17
AMP PEAK 43(19P13.2) MUTATED 13 3 0 4
AMP PEAK 43(19P13.2) WILD-TYPE 54 64 43 13

Figure S297.  Get High-res Image Gene #43: '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 = 0.012

Table S298.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 43(19P13.2) MUTATED 2 89 6
AMP PEAK 43(19P13.2) WILD-TYPE 149 141 143

Figure S298.  Get High-res Image Gene #43: '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 = 0.012

Table S299.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 43(19P13.2) MUTATED 11 81 5
AMP PEAK 43(19P13.2) WILD-TYPE 205 88 140

Figure S299.  Get High-res Image Gene #43: '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 = 0.012

Table S300.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 43(19P13.2) MUTATED 84 7 6
AMP PEAK 43(19P13.2) WILD-TYPE 142 136 155

Figure S300.  Get High-res Image Gene #43: '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 = 0.012

Table S301.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 43(19P13.2) MUTATED 9 1 63 24
AMP PEAK 43(19P13.2) WILD-TYPE 132 59 60 182

Figure S301.  Get High-res Image Gene #43: 'amp_19p13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19p13.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S302.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 43(19P13.2) MUTATED 51 22 8
AMP PEAK 43(19P13.2) WILD-TYPE 121 74 122

Figure S302.  Get High-res Image Gene #43: 'amp_19p13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19p13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S303.  Gene #43: 'amp_19p13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 43(19P13.2) MUTATED 47 8 26
AMP PEAK 43(19P13.2) WILD-TYPE 97 107 113

Figure S303.  Get High-res Image Gene #43: 'amp_19p13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q12' versus 'MRNA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S304.  Gene #44: '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 44(19Q12) MUTATED 2 7 1 0 0
AMP PEAK 44(19Q12) WILD-TYPE 12 2 6 7 16

Figure S304.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S305.  Gene #44: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 44(19Q12) MUTATED 113 2 2 0 4
AMP PEAK 44(19Q12) WILD-TYPE 56 303 17 9 33

Figure S305.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S306.  Gene #44: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 44(19Q12) MUTATED 80 18 9
AMP PEAK 44(19Q12) WILD-TYPE 85 71 162

Figure S306.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S307.  Gene #44: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 44(19Q12) MUTATED 3 109 7
AMP PEAK 44(19Q12) WILD-TYPE 148 121 142

Figure S307.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S308.  Gene #44: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 44(19Q12) MUTATED 15 98 6
AMP PEAK 44(19Q12) WILD-TYPE 201 71 139

Figure S308.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S309.  Gene #44: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 44(19Q12) MUTATED 101 8 8
AMP PEAK 44(19Q12) WILD-TYPE 125 135 153

Figure S309.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S310.  Gene #44: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 44(19Q12) MUTATED 10 1 78 28
AMP PEAK 44(19Q12) WILD-TYPE 131 59 45 178

Figure S310.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S311.  Gene #44: 'amp_19q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 44(19Q12) MUTATED 66 27 8
AMP PEAK 44(19Q12) WILD-TYPE 106 69 122

Figure S311.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S312.  Gene #44: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 44(19Q12) MUTATED 56 10 35
AMP PEAK 44(19Q12) WILD-TYPE 88 105 104

Figure S312.  Get High-res Image Gene #44: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20p13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S313.  Gene #45: 'amp_20p13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 45(20P13) MUTATED 87 8 12 2 8
AMP PEAK 45(20P13) WILD-TYPE 82 297 7 7 29

Figure S313.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20p13' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S314.  Gene #45: 'amp_20p13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 45(20P13) MUTATED 75 16 16
AMP PEAK 45(20P13) WILD-TYPE 90 73 155

Figure S314.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20p13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S315.  Gene #45: 'amp_20p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 45(20P13) MUTATED 11 89 15
AMP PEAK 45(20P13) WILD-TYPE 140 141 134

Figure S315.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20p13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S316.  Gene #45: 'amp_20p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 45(20P13) MUTATED 18 80 17
AMP PEAK 45(20P13) WILD-TYPE 198 89 128

Figure S316.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20p13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S317.  Gene #45: 'amp_20p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 45(20P13) MUTATED 86 15 15
AMP PEAK 45(20P13) WILD-TYPE 140 128 146

Figure S317.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20p13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S318.  Gene #45: 'amp_20p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 45(20P13) MUTATED 13 7 59 37
AMP PEAK 45(20P13) WILD-TYPE 128 53 64 169

Figure S318.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20p13' versus 'MIRSEQ_MATURE_CNMF'

P value = 5e-04 (Fisher's exact test), Q value = 0.22

Table S319.  Gene #45: 'amp_20p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 45(20P13) MUTATED 57 23 18
AMP PEAK 45(20P13) WILD-TYPE 115 73 112

Figure S319.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20p13' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S320.  Gene #45: 'amp_20p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 45(20P13) MUTATED 56 13 29
AMP PEAK 45(20P13) WILD-TYPE 88 102 110

Figure S320.  Get High-res Image Gene #45: 'amp_20p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q11.21' versus 'MRNA_CNMF'

P value = 4e-04 (Fisher's exact test), Q value = 0.18

Table S321.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
AMP PEAK 46(20Q11.21) MUTATED 2 9 0 0
AMP PEAK 46(20Q11.21) WILD-TYPE 12 8 12 10

Figure S321.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_20q11.21' versus 'MRNA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S322.  Gene #46: '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 46(20Q11.21) MUTATED 4 7 0 0 0
AMP PEAK 46(20Q11.21) WILD-TYPE 10 2 7 7 16

Figure S322.  Get High-res Image Gene #46: '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 = 0.012

Table S323.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 46(20Q11.21) MUTATED 120 8 13 3 8
AMP PEAK 46(20Q11.21) WILD-TYPE 49 297 6 6 29

Figure S323.  Get High-res Image Gene #46: '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 = 0.012

Table S324.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 46(20Q11.21) MUTATED 89 20 24
AMP PEAK 46(20Q11.21) WILD-TYPE 76 69 147

Figure S324.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q11.21' versus 'RPPA_CNMF'

P value = 4e-04 (Fisher's exact test), Q value = 0.18

Table S325.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
AMP PEAK 46(20Q11.21) MUTATED 8 12 2 0 2 8
AMP PEAK 46(20Q11.21) WILD-TYPE 33 25 37 12 39 16

Figure S325.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20q11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S326.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 46(20Q11.21) MUTATED 11 118 21
AMP PEAK 46(20Q11.21) WILD-TYPE 140 112 128

Figure S326.  Get High-res Image Gene #46: '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 = 0.012

Table S327.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 46(20Q11.21) MUTATED 26 101 23
AMP PEAK 46(20Q11.21) WILD-TYPE 190 68 122

Figure S327.  Get High-res Image Gene #46: '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 = 0.012

Table S328.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 46(20Q11.21) MUTATED 110 17 21
AMP PEAK 46(20Q11.21) WILD-TYPE 116 126 140

Figure S328.  Get High-res Image Gene #46: '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 = 0.012

Table S329.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 46(20Q11.21) MUTATED 21 7 80 40
AMP PEAK 46(20Q11.21) WILD-TYPE 120 53 43 166

Figure S329.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S330.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 46(20Q11.21) MUTATED 76 26 23
AMP PEAK 46(20Q11.21) WILD-TYPE 96 70 107

Figure S330.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20q11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S331.  Gene #46: 'amp_20q11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 46(20Q11.21) MUTATED 69 22 34
AMP PEAK 46(20Q11.21) WILD-TYPE 75 93 105

Figure S331.  Get High-res Image Gene #46: 'amp_20q11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q13.12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S332.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 47(20Q13.12) MUTATED 118 10 14 3 7
AMP PEAK 47(20Q13.12) WILD-TYPE 51 295 5 6 30

Figure S332.  Get High-res Image Gene #47: '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 = 0.012

Table S333.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 47(20Q13.12) MUTATED 94 20 24
AMP PEAK 47(20Q13.12) WILD-TYPE 71 69 147

Figure S333.  Get High-res Image Gene #47: 'amp_20q13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q13.12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S334.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 47(20Q13.12) MUTATED 12 117 20
AMP PEAK 47(20Q13.12) WILD-TYPE 139 113 129

Figure S334.  Get High-res Image Gene #47: '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 = 0.012

Table S335.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 47(20Q13.12) MUTATED 26 102 21
AMP PEAK 47(20Q13.12) WILD-TYPE 190 67 124

Figure S335.  Get High-res Image Gene #47: '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 = 0.012

Table S336.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 47(20Q13.12) MUTATED 112 18 21
AMP PEAK 47(20Q13.12) WILD-TYPE 114 125 140

Figure S336.  Get High-res Image Gene #47: '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 = 0.012

Table S337.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 47(20Q13.12) MUTATED 21 7 79 44
AMP PEAK 47(20Q13.12) WILD-TYPE 120 53 44 162

Figure S337.  Get High-res Image Gene #47: 'amp_20q13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.12' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S338.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 47(20Q13.12) MUTATED 77 28 24
AMP PEAK 47(20Q13.12) WILD-TYPE 95 68 106

Figure S338.  Get High-res Image Gene #47: '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 = 0.012

Table S339.  Gene #47: 'amp_20q13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 47(20Q13.12) MUTATED 74 21 34
AMP PEAK 47(20Q13.12) WILD-TYPE 70 94 105

Figure S339.  Get High-res Image Gene #47: 'amp_20q13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_20q13.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S340.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 48(20Q13.33) MUTATED 117 11 15 3 7
AMP PEAK 48(20Q13.33) WILD-TYPE 52 294 4 6 30

Figure S340.  Get High-res Image Gene #48: '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 = 0.012

Table S341.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 48(20Q13.33) MUTATED 91 21 24
AMP PEAK 48(20Q13.33) WILD-TYPE 74 68 147

Figure S341.  Get High-res Image Gene #48: 'amp_20q13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q13.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S342.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 48(20Q13.33) MUTATED 14 116 21
AMP PEAK 48(20Q13.33) WILD-TYPE 137 114 128

Figure S342.  Get High-res Image Gene #48: '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 = 0.012

Table S343.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 48(20Q13.33) MUTATED 29 100 22
AMP PEAK 48(20Q13.33) WILD-TYPE 187 69 123

Figure S343.  Get High-res Image Gene #48: '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 = 0.012

Table S344.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 48(20Q13.33) MUTATED 110 18 22
AMP PEAK 48(20Q13.33) WILD-TYPE 116 125 139

Figure S344.  Get High-res Image Gene #48: '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 = 0.012

Table S345.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 48(20Q13.33) MUTATED 21 8 77 44
AMP PEAK 48(20Q13.33) WILD-TYPE 120 52 46 162

Figure S345.  Get High-res Image Gene #48: 'amp_20q13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S346.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 48(20Q13.33) MUTATED 76 28 23
AMP PEAK 48(20Q13.33) WILD-TYPE 96 68 107

Figure S346.  Get High-res Image Gene #48: '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 = 0.012

Table S347.  Gene #48: 'amp_20q13.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 48(20Q13.33) MUTATED 71 21 35
AMP PEAK 48(20Q13.33) WILD-TYPE 73 94 104

Figure S347.  Get High-res Image Gene #48: '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 = 0.012

Table S348.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 49(22Q12.2) MUTATED 56 4 1 1 0
AMP PEAK 49(22Q12.2) WILD-TYPE 113 301 18 8 37

Figure S348.  Get High-res Image Gene #49: '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 = 0.012

Table S349.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 49(22Q12.2) MUTATED 49 8 0
AMP PEAK 49(22Q12.2) WILD-TYPE 116 81 171

Figure S349.  Get High-res Image Gene #49: 'amp_22q12.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_22q12.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S350.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 49(22Q12.2) MUTATED 1 60 0
AMP PEAK 49(22Q12.2) WILD-TYPE 150 170 149

Figure S350.  Get High-res Image Gene #49: '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 = 0.012

Table S351.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 49(22Q12.2) MUTATED 3 58 0
AMP PEAK 49(22Q12.2) WILD-TYPE 213 111 145

Figure S351.  Get High-res Image Gene #49: '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 = 0.012

Table S352.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
AMP PEAK 49(22Q12.2) MUTATED 60 1 0
AMP PEAK 49(22Q12.2) WILD-TYPE 166 142 161

Figure S352.  Get High-res Image Gene #49: '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 = 0.012

Table S353.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 49(22Q12.2) MUTATED 1 1 46 13
AMP PEAK 49(22Q12.2) WILD-TYPE 140 59 77 193

Figure S353.  Get High-res Image Gene #49: '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 = 0.012

Table S354.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
AMP PEAK 49(22Q12.2) MUTATED 43 10 3
AMP PEAK 49(22Q12.2) WILD-TYPE 129 86 127

Figure S354.  Get High-res Image Gene #49: '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 = 0.012

Table S355.  Gene #49: 'amp_22q12.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
AMP PEAK 49(22Q12.2) MUTATED 40 1 15
AMP PEAK 49(22Q12.2) WILD-TYPE 104 114 124

Figure S355.  Get High-res Image Gene #49: '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 = 0.012

Table S356.  Gene #50: 'amp_xp11.23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 50(XP11.23) MUTATED 48 8 8 3 23
AMP PEAK 50(XP11.23) WILD-TYPE 121 297 11 6 14

Figure S356.  Get High-res Image Gene #50: 'amp_xp11.23' versus Molecular Subtype #3: 'CN_CNMF'

'amp_xp11.23' versus 'METHLYATION_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.1

Table S357.  Gene #50: 'amp_xp11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
AMP PEAK 50(XP11.23) MUTATED 43 11 17
AMP PEAK 50(XP11.23) WILD-TYPE 122 78 154

Figure S357.  Get High-res Image Gene #50: 'amp_xp11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_xp11.23' versus 'MRNASEQ_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.072

Table S358.  Gene #50: 'amp_xp11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
AMP PEAK 50(XP11.23) MUTATED 15 56 17
AMP PEAK 50(XP11.23) WILD-TYPE 136 174 132

Figure S358.  Get High-res Image Gene #50: 'amp_xp11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_xp11.23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S359.  Gene #50: 'amp_xp11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 50(XP11.23) MUTATED 23 48 17
AMP PEAK 50(XP11.23) WILD-TYPE 193 121 128

Figure S359.  Get High-res Image Gene #50: 'amp_xp11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_xp11.23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00051 (Fisher's exact test), Q value = 0.22

Table S360.  Gene #50: 'amp_xp11.23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
AMP PEAK 50(XP11.23) MUTATED 16 6 36 31
AMP PEAK 50(XP11.23) WILD-TYPE 125 54 87 175

Figure S360.  Get High-res Image Gene #50: 'amp_xp11.23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_xq28' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S361.  Gene #51: 'amp_xq28' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
AMP PEAK 51(XQ28) MUTATED 49 10 8 3 23
AMP PEAK 51(XQ28) WILD-TYPE 120 295 11 6 14

Figure S361.  Get High-res Image Gene #51: 'amp_xq28' versus Molecular Subtype #3: 'CN_CNMF'

'amp_xq28' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00012 (Fisher's exact test), Q value = 0.059

Table S362.  Gene #51: 'amp_xq28' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
AMP PEAK 51(XQ28) MUTATED 27 47 17
AMP PEAK 51(XQ28) WILD-TYPE 189 122 128

Figure S362.  Get High-res Image Gene #51: 'amp_xq28' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_1p36.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S363.  Gene #52: 'del_1p36.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 1(1P36.21) MUTATED 60 3 3 5 0
DEL PEAK 1(1P36.21) WILD-TYPE 109 302 16 4 37

Figure S363.  Get High-res Image Gene #52: '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 = 0.012

Table S364.  Gene #52: 'del_1p36.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 1(1P36.21) MUTATED 39 15 6
DEL PEAK 1(1P36.21) WILD-TYPE 126 74 165

Figure S364.  Get High-res Image Gene #52: 'del_1p36.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p36.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S365.  Gene #52: 'del_1p36.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 1(1P36.21) MUTATED 6 60 4
DEL PEAK 1(1P36.21) WILD-TYPE 145 170 145

Figure S365.  Get High-res Image Gene #52: '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 = 0.012

Table S366.  Gene #52: 'del_1p36.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 1(1P36.21) MUTATED 17 50 3
DEL PEAK 1(1P36.21) WILD-TYPE 199 119 142

Figure S366.  Get High-res Image Gene #52: '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 = 0.012

Table S367.  Gene #52: 'del_1p36.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 1(1P36.21) MUTATED 54 8 6
DEL PEAK 1(1P36.21) WILD-TYPE 172 135 155

Figure S367.  Get High-res Image Gene #52: '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 = 0.012

Table S368.  Gene #52: 'del_1p36.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 1(1P36.21) MUTATED 3 0 40 25
DEL PEAK 1(1P36.21) WILD-TYPE 138 60 83 181

Figure S368.  Get High-res Image Gene #52: 'del_1p36.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_1p36.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00021 (Fisher's exact test), Q value = 0.099

Table S369.  Gene #52: 'del_1p36.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 1(1P36.21) MUTATED 27 5 28
DEL PEAK 1(1P36.21) WILD-TYPE 117 110 111

Figure S369.  Get High-res Image Gene #52: 'del_1p36.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_1p36.11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S370.  Gene #53: 'del_1p36.11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 2(1P36.11) MUTATED 72 2 4 5 0
DEL PEAK 2(1P36.11) WILD-TYPE 97 303 15 4 37

Figure S370.  Get High-res Image Gene #53: '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 = 0.012

Table S371.  Gene #53: 'del_1p36.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 2(1P36.11) MUTATED 56 12 6
DEL PEAK 2(1P36.11) WILD-TYPE 109 77 165

Figure S371.  Get High-res Image Gene #53: 'del_1p36.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p36.11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S372.  Gene #53: 'del_1p36.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 2(1P36.11) MUTATED 6 72 4
DEL PEAK 2(1P36.11) WILD-TYPE 145 158 145

Figure S372.  Get High-res Image Gene #53: '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 = 0.012

Table S373.  Gene #53: 'del_1p36.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 2(1P36.11) MUTATED 19 60 3
DEL PEAK 2(1P36.11) WILD-TYPE 197 109 142

Figure S373.  Get High-res Image Gene #53: '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 = 0.012

Table S374.  Gene #53: 'del_1p36.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 2(1P36.11) MUTATED 66 7 7
DEL PEAK 2(1P36.11) WILD-TYPE 160 136 154

Figure S374.  Get High-res Image Gene #53: '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 = 0.012

Table S375.  Gene #53: 'del_1p36.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 2(1P36.11) MUTATED 3 0 47 30
DEL PEAK 2(1P36.11) WILD-TYPE 138 60 76 176

Figure S375.  Get High-res Image Gene #53: 'del_1p36.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_1p36.11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S376.  Gene #53: 'del_1p36.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 2(1P36.11) MUTATED 42 6 25
DEL PEAK 2(1P36.11) WILD-TYPE 102 109 114

Figure S376.  Get High-res Image Gene #53: '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 = 0.012

Table S377.  Gene #54: 'del_2p25.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 3(2P25.3) MUTATED 24 2 0 0 0
DEL PEAK 3(2P25.3) WILD-TYPE 145 303 19 9 37

Figure S377.  Get High-res Image Gene #54: 'del_2p25.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_2p25.3' versus 'METHLYATION_CNMF'

P value = 0.00017 (Fisher's exact test), Q value = 0.081

Table S378.  Gene #54: 'del_2p25.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 3(2P25.3) MUTATED 19 4 2
DEL PEAK 3(2P25.3) WILD-TYPE 146 85 169

Figure S378.  Get High-res Image Gene #54: 'del_2p25.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2p25.3' versus 'MRNASEQ_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.035

Table S379.  Gene #54: 'del_2p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 3(2P25.3) MUTATED 1 22 3
DEL PEAK 3(2P25.3) WILD-TYPE 150 208 146

Figure S379.  Get High-res Image Gene #54: 'del_2p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2p25.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.04

Table S380.  Gene #54: 'del_2p25.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 3(2P25.3) MUTATED 4 19 3
DEL PEAK 3(2P25.3) WILD-TYPE 212 150 142

Figure S380.  Get High-res Image Gene #54: 'del_2p25.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2p25.3' versus 'MIRSEQ_CNMF'

P value = 0.00041 (Fisher's exact test), Q value = 0.19

Table S381.  Gene #54: 'del_2p25.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 3(2P25.3) MUTATED 21 2 3
DEL PEAK 3(2P25.3) WILD-TYPE 205 141 158

Figure S381.  Get High-res Image Gene #54: 'del_2p25.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2q22.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S382.  Gene #55: 'del_2q22.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 4(2Q22.1) MUTATED 46 0 2 0 0
DEL PEAK 4(2Q22.1) WILD-TYPE 123 305 17 9 37

Figure S382.  Get High-res Image Gene #55: 'del_2q22.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_2q22.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S383.  Gene #55: 'del_2q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 4(2Q22.1) MUTATED 30 8 4
DEL PEAK 4(2Q22.1) WILD-TYPE 135 81 167

Figure S383.  Get High-res Image Gene #55: 'del_2q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2q22.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S384.  Gene #55: 'del_2q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 4(2Q22.1) MUTATED 0 43 5
DEL PEAK 4(2Q22.1) WILD-TYPE 151 187 144

Figure S384.  Get High-res Image Gene #55: '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 = 0.012

Table S385.  Gene #55: 'del_2q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 4(2Q22.1) MUTATED 8 34 6
DEL PEAK 4(2Q22.1) WILD-TYPE 208 135 139

Figure S385.  Get High-res Image Gene #55: '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 = 0.012

Table S386.  Gene #55: 'del_2q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 4(2Q22.1) MUTATED 37 5 4
DEL PEAK 4(2Q22.1) WILD-TYPE 189 138 157

Figure S386.  Get High-res Image Gene #55: 'del_2q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2q22.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.045

Table S387.  Gene #55: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 4(2Q22.1) MUTATED 5 1 22 18
DEL PEAK 4(2Q22.1) WILD-TYPE 136 59 101 188

Figure S387.  Get High-res Image Gene #55: 'del_2q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2q37.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S388.  Gene #56: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 5(2Q37.3) MUTATED 49 1 2 0 1
DEL PEAK 5(2Q37.3) WILD-TYPE 120 304 17 9 36

Figure S388.  Get High-res Image Gene #56: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_2q37.3' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S389.  Gene #56: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 5(2Q37.3) MUTATED 35 6 8
DEL PEAK 5(2Q37.3) WILD-TYPE 130 83 163

Figure S389.  Get High-res Image Gene #56: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2q37.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S390.  Gene #56: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 5(2Q37.3) MUTATED 3 42 7
DEL PEAK 5(2Q37.3) WILD-TYPE 148 188 142

Figure S390.  Get High-res Image Gene #56: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2q37.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S391.  Gene #56: 'del_2q37.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 5(2Q37.3) MUTATED 13 32 7
DEL PEAK 5(2Q37.3) WILD-TYPE 203 137 138

Figure S391.  Get High-res Image Gene #56: 'del_2q37.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2q37.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S392.  Gene #56: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 5(2Q37.3) MUTATED 39 5 8
DEL PEAK 5(2Q37.3) WILD-TYPE 187 138 153

Figure S392.  Get High-res Image Gene #56: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_3p14.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S393.  Gene #57: 'del_3p14.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 6(3P14.2) MUTATED 72 0 4 2 1
DEL PEAK 6(3P14.2) WILD-TYPE 97 305 15 7 36

Figure S393.  Get High-res Image Gene #57: '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 = 0.012

Table S394.  Gene #57: 'del_3p14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 6(3P14.2) MUTATED 51 12 5
DEL PEAK 6(3P14.2) WILD-TYPE 114 77 166

Figure S394.  Get High-res Image Gene #57: 'del_3p14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_3p14.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S395.  Gene #57: 'del_3p14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 6(3P14.2) MUTATED 1 71 4
DEL PEAK 6(3P14.2) WILD-TYPE 150 159 145

Figure S395.  Get High-res Image Gene #57: '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 = 0.012

Table S396.  Gene #57: 'del_3p14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 6(3P14.2) MUTATED 13 58 5
DEL PEAK 6(3P14.2) WILD-TYPE 203 111 140

Figure S396.  Get High-res Image Gene #57: '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 = 0.012

Table S397.  Gene #57: 'del_3p14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 6(3P14.2) MUTATED 64 9 4
DEL PEAK 6(3P14.2) WILD-TYPE 162 134 157

Figure S397.  Get High-res Image Gene #57: '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 = 0.012

Table S398.  Gene #57: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 6(3P14.2) MUTATED 6 2 43 26
DEL PEAK 6(3P14.2) WILD-TYPE 135 58 80 180

Figure S398.  Get High-res Image Gene #57: 'del_3p14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_3p14.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00027 (Fisher's exact test), Q value = 0.13

Table S399.  Gene #57: 'del_3p14.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 6(3P14.2) MUTATED 41 16 9
DEL PEAK 6(3P14.2) WILD-TYPE 131 80 121

Figure S399.  Get High-res Image Gene #57: '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 = 0.012

Table S400.  Gene #57: 'del_3p14.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 6(3P14.2) MUTATED 42 4 20
DEL PEAK 6(3P14.2) WILD-TYPE 102 111 119

Figure S400.  Get High-res Image Gene #57: '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 = 0.012

Table S401.  Gene #58: 'del_3q13.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 7(3Q13.31) MUTATED 36 4 0 2 1
DEL PEAK 7(3Q13.31) WILD-TYPE 133 301 19 7 36

Figure S401.  Get High-res Image Gene #58: 'del_3q13.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_3q13.31' versus 'METHLYATION_CNMF'

P value = 0.00046 (Fisher's exact test), Q value = 0.21

Table S402.  Gene #58: 'del_3q13.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 7(3Q13.31) MUTATED 24 7 5
DEL PEAK 7(3Q13.31) WILD-TYPE 141 82 166

Figure S402.  Get High-res Image Gene #58: 'del_3q13.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_3q13.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S403.  Gene #58: 'del_3q13.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 7(3Q13.31) MUTATED 2 35 6
DEL PEAK 7(3Q13.31) WILD-TYPE 149 195 143

Figure S403.  Get High-res Image Gene #58: '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 = 0.012

Table S404.  Gene #58: 'del_3q13.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 7(3Q13.31) MUTATED 5 32 6
DEL PEAK 7(3Q13.31) WILD-TYPE 211 137 139

Figure S404.  Get High-res Image Gene #58: 'del_3q13.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_3q13.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S405.  Gene #58: 'del_3q13.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 7(3Q13.31) MUTATED 32 4 5
DEL PEAK 7(3Q13.31) WILD-TYPE 194 139 156

Figure S405.  Get High-res Image Gene #58: 'del_3q13.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_3q13.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00047 (Fisher's exact test), Q value = 0.21

Table S406.  Gene #58: 'del_3q13.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 7(3Q13.31) MUTATED 5 2 21 13
DEL PEAK 7(3Q13.31) WILD-TYPE 136 58 102 193

Figure S406.  Get High-res Image Gene #58: 'del_3q13.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p16.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S407.  Gene #59: 'del_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 8(4P16.3) MUTATED 79 4 5 4 2
DEL PEAK 8(4P16.3) WILD-TYPE 90 301 14 5 35

Figure S407.  Get High-res Image Gene #59: '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 = 0.012

Table S408.  Gene #59: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 8(4P16.3) MUTATED 62 13 7
DEL PEAK 8(4P16.3) WILD-TYPE 103 76 164

Figure S408.  Get High-res Image Gene #59: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4p16.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S409.  Gene #59: 'del_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 8(4P16.3) MUTATED 6 78 9
DEL PEAK 8(4P16.3) WILD-TYPE 145 152 140

Figure S409.  Get High-res Image Gene #59: '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 = 0.012

Table S410.  Gene #59: 'del_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 8(4P16.3) MUTATED 18 68 7
DEL PEAK 8(4P16.3) WILD-TYPE 198 101 138

Figure S410.  Get High-res Image Gene #59: '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 = 0.012

Table S411.  Gene #59: 'del_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 8(4P16.3) MUTATED 73 9 9
DEL PEAK 8(4P16.3) WILD-TYPE 153 134 152

Figure S411.  Get High-res Image Gene #59: '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 = 0.012

Table S412.  Gene #59: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 8(4P16.3) MUTATED 6 1 55 29
DEL PEAK 8(4P16.3) WILD-TYPE 135 59 68 177

Figure S412.  Get High-res Image Gene #59: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p16.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S413.  Gene #59: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 8(4P16.3) MUTATED 46 24 10
DEL PEAK 8(4P16.3) WILD-TYPE 126 72 120

Figure S413.  Get High-res Image Gene #59: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S414.  Gene #59: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 8(4P16.3) MUTATED 45 8 27
DEL PEAK 8(4P16.3) WILD-TYPE 99 107 112

Figure S414.  Get High-res Image Gene #59: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4p15.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S415.  Gene #60: 'del_4p15.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 9(4P15.2) MUTATED 84 3 5 4 2
DEL PEAK 9(4P15.2) WILD-TYPE 85 302 14 5 35

Figure S415.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_4p15.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S416.  Gene #60: 'del_4p15.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 9(4P15.2) MUTATED 67 14 6
DEL PEAK 9(4P15.2) WILD-TYPE 98 75 165

Figure S416.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4p15.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S417.  Gene #60: 'del_4p15.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 9(4P15.2) MUTATED 6 83 8
DEL PEAK 9(4P15.2) WILD-TYPE 145 147 141

Figure S417.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4p15.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S418.  Gene #60: 'del_4p15.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 9(4P15.2) MUTATED 20 70 7
DEL PEAK 9(4P15.2) WILD-TYPE 196 99 138

Figure S418.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4p15.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S419.  Gene #60: 'del_4p15.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 9(4P15.2) MUTATED 78 10 8
DEL PEAK 9(4P15.2) WILD-TYPE 148 133 153

Figure S419.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4p15.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S420.  Gene #60: 'del_4p15.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 9(4P15.2) MUTATED 5 1 58 32
DEL PEAK 9(4P15.2) WILD-TYPE 136 59 65 174

Figure S420.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p15.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S421.  Gene #60: 'del_4p15.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 9(4P15.2) MUTATED 52 24 10
DEL PEAK 9(4P15.2) WILD-TYPE 120 72 120

Figure S421.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4p15.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S422.  Gene #60: 'del_4p15.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 9(4P15.2) MUTATED 49 7 30
DEL PEAK 9(4P15.2) WILD-TYPE 95 108 109

Figure S422.  Get High-res Image Gene #60: 'del_4p15.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q22.1' versus 'MRNA_CHIERARCHICAL'

P value = 1e-04 (Fisher's exact test), Q value = 0.049

Table S423.  Gene #61: '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 S423.  Get High-res Image Gene #61: '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 = 0.012

Table S424.  Gene #61: 'del_4q22.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 10(4Q22.1) MUTATED 94 2 4 4 2
DEL PEAK 10(4Q22.1) WILD-TYPE 75 303 15 5 35

Figure S424.  Get High-res Image Gene #61: '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 = 0.012

Table S425.  Gene #61: 'del_4q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 10(4Q22.1) MUTATED 71 16 5
DEL PEAK 10(4Q22.1) WILD-TYPE 94 73 166

Figure S425.  Get High-res Image Gene #61: 'del_4q22.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4q22.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S426.  Gene #61: 'del_4q22.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 10(4Q22.1) MUTATED 5 93 7
DEL PEAK 10(4Q22.1) WILD-TYPE 146 137 142

Figure S426.  Get High-res Image Gene #61: '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 = 0.012

Table S427.  Gene #61: 'del_4q22.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 10(4Q22.1) MUTATED 20 79 6
DEL PEAK 10(4Q22.1) WILD-TYPE 196 90 139

Figure S427.  Get High-res Image Gene #61: '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 = 0.012

Table S428.  Gene #61: 'del_4q22.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 10(4Q22.1) MUTATED 88 8 7
DEL PEAK 10(4Q22.1) WILD-TYPE 138 135 154

Figure S428.  Get High-res Image Gene #61: '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 = 0.012

Table S429.  Gene #61: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 10(4Q22.1) MUTATED 4 0 66 33
DEL PEAK 10(4Q22.1) WILD-TYPE 137 60 57 173

Figure S429.  Get High-res Image Gene #61: 'del_4q22.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4q22.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S430.  Gene #61: 'del_4q22.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 10(4Q22.1) MUTATED 56 26 8
DEL PEAK 10(4Q22.1) WILD-TYPE 116 70 122

Figure S430.  Get High-res Image Gene #61: '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 = 0.012

Table S431.  Gene #61: 'del_4q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 10(4Q22.1) MUTATED 48 5 37
DEL PEAK 10(4Q22.1) WILD-TYPE 96 110 102

Figure S431.  Get High-res Image Gene #61: 'del_4q22.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q34.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.054

Table S432.  Gene #62: '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 S432.  Get High-res Image Gene #62: '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 = 0.012

Table S433.  Gene #62: 'del_4q34.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 11(4Q34.3) MUTATED 111 6 6 4 3
DEL PEAK 11(4Q34.3) WILD-TYPE 58 299 13 5 34

Figure S433.  Get High-res Image Gene #62: '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 = 0.012

Table S434.  Gene #62: 'del_4q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 11(4Q34.3) MUTATED 81 22 11
DEL PEAK 11(4Q34.3) WILD-TYPE 84 67 160

Figure S434.  Get High-res Image Gene #62: 'del_4q34.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4q34.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S435.  Gene #62: 'del_4q34.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 11(4Q34.3) MUTATED 8 113 8
DEL PEAK 11(4Q34.3) WILD-TYPE 143 117 141

Figure S435.  Get High-res Image Gene #62: '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 = 0.012

Table S436.  Gene #62: 'del_4q34.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 11(4Q34.3) MUTATED 27 95 7
DEL PEAK 11(4Q34.3) WILD-TYPE 189 74 138

Figure S436.  Get High-res Image Gene #62: '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 = 0.012

Table S437.  Gene #62: 'del_4q34.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 11(4Q34.3) MUTATED 102 17 8
DEL PEAK 11(4Q34.3) WILD-TYPE 124 126 153

Figure S437.  Get High-res Image Gene #62: '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 = 0.012

Table S438.  Gene #62: 'del_4q34.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 11(4Q34.3) MUTATED 7 1 74 45
DEL PEAK 11(4Q34.3) WILD-TYPE 134 59 49 161

Figure S438.  Get High-res Image Gene #62: '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 = 0.012

Table S439.  Gene #62: 'del_4q34.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 11(4Q34.3) MUTATED 66 33 13
DEL PEAK 11(4Q34.3) WILD-TYPE 106 63 117

Figure S439.  Get High-res Image Gene #62: '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 = 0.012

Table S440.  Gene #62: 'del_4q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 11(4Q34.3) MUTATED 59 7 46
DEL PEAK 11(4Q34.3) WILD-TYPE 85 108 93

Figure S440.  Get High-res Image Gene #62: 'del_4q34.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_5q12.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S441.  Gene #63: 'del_5q12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 12(5Q12.1) MUTATED 103 0 2 2 4
DEL PEAK 12(5Q12.1) WILD-TYPE 66 305 17 7 33

Figure S441.  Get High-res Image Gene #63: '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 = 0.012

Table S442.  Gene #63: 'del_5q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 12(5Q12.1) MUTATED 75 14 8
DEL PEAK 12(5Q12.1) WILD-TYPE 90 75 163

Figure S442.  Get High-res Image Gene #63: 'del_5q12.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_5q12.1' versus 'RPPA_CNMF'

P value = 0.00021 (Fisher's exact test), Q value = 0.099

Table S443.  Gene #63: 'del_5q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
DEL PEAK 12(5Q12.1) MUTATED 6 9 1 0 0 6
DEL PEAK 12(5Q12.1) WILD-TYPE 35 28 38 12 41 18

Figure S443.  Get High-res Image Gene #63: 'del_5q12.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_5q12.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S444.  Gene #63: 'del_5q12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 12(5Q12.1) MUTATED 4 95 10
DEL PEAK 12(5Q12.1) WILD-TYPE 147 135 139

Figure S444.  Get High-res Image Gene #63: '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 = 0.012

Table S445.  Gene #63: 'del_5q12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 12(5Q12.1) MUTATED 19 79 11
DEL PEAK 12(5Q12.1) WILD-TYPE 197 90 134

Figure S445.  Get High-res Image Gene #63: '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 = 0.012

Table S446.  Gene #63: 'del_5q12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 12(5Q12.1) MUTATED 90 10 10
DEL PEAK 12(5Q12.1) WILD-TYPE 136 133 151

Figure S446.  Get High-res Image Gene #63: '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 = 0.012

Table S447.  Gene #63: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 12(5Q12.1) MUTATED 9 0 62 39
DEL PEAK 12(5Q12.1) WILD-TYPE 132 60 61 167

Figure S447.  Get High-res Image Gene #63: 'del_5q12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_5q12.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S448.  Gene #63: 'del_5q12.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 12(5Q12.1) MUTATED 61 22 12
DEL PEAK 12(5Q12.1) WILD-TYPE 111 74 118

Figure S448.  Get High-res Image Gene #63: '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 = 0.012

Table S449.  Gene #63: 'del_5q12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 12(5Q12.1) MUTATED 54 10 31
DEL PEAK 12(5Q12.1) WILD-TYPE 90 105 108

Figure S449.  Get High-res Image Gene #63: 'del_5q12.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q26' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S450.  Gene #64: 'del_6q26' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 13(6Q26) MUTATED 39 4 2 1 0
DEL PEAK 13(6Q26) WILD-TYPE 130 301 17 8 37

Figure S450.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #3: 'CN_CNMF'

'del_6q26' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S451.  Gene #64: 'del_6q26' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 13(6Q26) MUTATED 31 8 1
DEL PEAK 13(6Q26) WILD-TYPE 134 81 170

Figure S451.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_6q26' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S452.  Gene #64: 'del_6q26' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 13(6Q26) MUTATED 2 42 2
DEL PEAK 13(6Q26) WILD-TYPE 149 188 147

Figure S452.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_6q26' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S453.  Gene #64: 'del_6q26' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 13(6Q26) MUTATED 6 39 1
DEL PEAK 13(6Q26) WILD-TYPE 210 130 144

Figure S453.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_6q26' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S454.  Gene #64: 'del_6q26' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 13(6Q26) MUTATED 37 6 2
DEL PEAK 13(6Q26) WILD-TYPE 189 137 159

Figure S454.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_6q26' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S455.  Gene #64: 'del_6q26' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 13(6Q26) MUTATED 2 0 28 15
DEL PEAK 13(6Q26) WILD-TYPE 139 60 95 191

Figure S455.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_6q26' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.04

Table S456.  Gene #64: 'del_6q26' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 13(6Q26) MUTATED 19 1 19
DEL PEAK 13(6Q26) WILD-TYPE 125 114 120

Figure S456.  Get High-res Image Gene #64: 'del_6q26' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7p22.3' versus 'MRNA_CNMF'

P value = 0.00014 (Fisher's exact test), Q value = 0.068

Table S457.  Gene #65: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 14(7P22.3) MUTATED 0 8 0 0
DEL PEAK 14(7P22.3) WILD-TYPE 14 9 12 10

Figure S457.  Get High-res Image Gene #65: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_7p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S458.  Gene #65: 'del_7p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 14(7P22.3) MUTATED 65 4 1 1 1
DEL PEAK 14(7P22.3) WILD-TYPE 104 301 18 8 36

Figure S458.  Get High-res Image Gene #65: '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 = 0.012

Table S459.  Gene #65: 'del_7p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 14(7P22.3) MUTATED 45 13 4
DEL PEAK 14(7P22.3) WILD-TYPE 120 76 167

Figure S459.  Get High-res Image Gene #65: 'del_7p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7p22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S460.  Gene #65: 'del_7p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 14(7P22.3) MUTATED 2 66 4
DEL PEAK 14(7P22.3) WILD-TYPE 149 164 145

Figure S460.  Get High-res Image Gene #65: '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 = 0.012

Table S461.  Gene #65: 'del_7p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 14(7P22.3) MUTATED 8 60 4
DEL PEAK 14(7P22.3) WILD-TYPE 208 109 141

Figure S461.  Get High-res Image Gene #65: '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 = 0.012

Table S462.  Gene #65: 'del_7p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 14(7P22.3) MUTATED 60 5 5
DEL PEAK 14(7P22.3) WILD-TYPE 166 138 156

Figure S462.  Get High-res Image Gene #65: '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 = 0.012

Table S463.  Gene #65: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 14(7P22.3) MUTATED 3 0 48 19
DEL PEAK 14(7P22.3) WILD-TYPE 138 60 75 187

Figure S463.  Get High-res Image Gene #65: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.1

Table S464.  Gene #65: 'del_7p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 14(7P22.3) MUTATED 34 18 6
DEL PEAK 14(7P22.3) WILD-TYPE 138 78 124

Figure S464.  Get High-res Image Gene #65: 'del_7p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7p22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S465.  Gene #65: 'del_7p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 14(7P22.3) MUTATED 33 4 21
DEL PEAK 14(7P22.3) WILD-TYPE 111 111 118

Figure S465.  Get High-res Image Gene #65: '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 = 0.012

Table S466.  Gene #66: 'del_7q11.22' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 15(7Q11.22) MUTATED 39 0 0 1 1
DEL PEAK 15(7Q11.22) WILD-TYPE 130 305 19 8 36

Figure S466.  Get High-res Image Gene #66: 'del_7q11.22' versus Molecular Subtype #3: 'CN_CNMF'

'del_7q11.22' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S467.  Gene #66: 'del_7q11.22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 15(7Q11.22) MUTATED 27 8 3
DEL PEAK 15(7Q11.22) WILD-TYPE 138 81 168

Figure S467.  Get High-res Image Gene #66: 'del_7q11.22' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q11.22' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S468.  Gene #66: 'del_7q11.22' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 15(7Q11.22) MUTATED 0 39 2
DEL PEAK 15(7Q11.22) WILD-TYPE 151 191 147

Figure S468.  Get High-res Image Gene #66: '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 = 0.012

Table S469.  Gene #66: 'del_7q11.22' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 15(7Q11.22) MUTATED 7 31 3
DEL PEAK 15(7Q11.22) WILD-TYPE 209 138 142

Figure S469.  Get High-res Image Gene #66: '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 = 0.012

Table S470.  Gene #66: 'del_7q11.22' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 15(7Q11.22) MUTATED 34 3 3
DEL PEAK 15(7Q11.22) WILD-TYPE 192 140 158

Figure S470.  Get High-res Image Gene #66: '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 = 0.012

Table S471.  Gene #66: 'del_7q11.22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 15(7Q11.22) MUTATED 3 0 26 11
DEL PEAK 15(7Q11.22) WILD-TYPE 138 60 97 195

Figure S471.  Get High-res Image Gene #66: 'del_7q11.22' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q31.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S472.  Gene #67: 'del_7q31.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 16(7Q31.1) MUTATED 54 0 0 1 0
DEL PEAK 16(7Q31.1) WILD-TYPE 115 305 19 8 37

Figure S472.  Get High-res Image Gene #67: '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 = 0.012

Table S473.  Gene #67: 'del_7q31.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 16(7Q31.1) MUTATED 38 11 1
DEL PEAK 16(7Q31.1) WILD-TYPE 127 78 170

Figure S473.  Get High-res Image Gene #67: 'del_7q31.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q31.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S474.  Gene #67: 'del_7q31.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 16(7Q31.1) MUTATED 0 54 1
DEL PEAK 16(7Q31.1) WILD-TYPE 151 176 148

Figure S474.  Get High-res Image Gene #67: '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 = 0.012

Table S475.  Gene #67: 'del_7q31.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 16(7Q31.1) MUTATED 5 48 2
DEL PEAK 16(7Q31.1) WILD-TYPE 211 121 143

Figure S475.  Get High-res Image Gene #67: '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 = 0.012

Table S476.  Gene #67: 'del_7q31.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 16(7Q31.1) MUTATED 49 2 3
DEL PEAK 16(7Q31.1) WILD-TYPE 177 141 158

Figure S476.  Get High-res Image Gene #67: '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 = 0.012

Table S477.  Gene #67: 'del_7q31.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 16(7Q31.1) MUTATED 3 0 41 10
DEL PEAK 16(7Q31.1) WILD-TYPE 138 60 82 196

Figure S477.  Get High-res Image Gene #67: 'del_7q31.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q31.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00032 (Fisher's exact test), Q value = 0.15

Table S478.  Gene #67: 'del_7q31.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 16(7Q31.1) MUTATED 32 10 5
DEL PEAK 16(7Q31.1) WILD-TYPE 140 86 125

Figure S478.  Get High-res Image Gene #67: 'del_7q31.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7q31.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00053 (Fisher's exact test), Q value = 0.23

Table S479.  Gene #67: 'del_7q31.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 16(7Q31.1) MUTATED 27 4 16
DEL PEAK 16(7Q31.1) WILD-TYPE 117 111 123

Figure S479.  Get High-res Image Gene #67: '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 = 0.012

Table S480.  Gene #68: 'del_7q36.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 17(7Q36.1) MUTATED 60 1 0 1 1
DEL PEAK 17(7Q36.1) WILD-TYPE 109 304 19 8 36

Figure S480.  Get High-res Image Gene #68: '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 = 0.012

Table S481.  Gene #68: 'del_7q36.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 17(7Q36.1) MUTATED 41 12 1
DEL PEAK 17(7Q36.1) WILD-TYPE 124 77 170

Figure S481.  Get High-res Image Gene #68: 'del_7q36.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_7q36.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S482.  Gene #68: 'del_7q36.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 17(7Q36.1) MUTATED 0 62 1
DEL PEAK 17(7Q36.1) WILD-TYPE 151 168 148

Figure S482.  Get High-res Image Gene #68: '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 = 0.012

Table S483.  Gene #68: 'del_7q36.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 17(7Q36.1) MUTATED 4 57 2
DEL PEAK 17(7Q36.1) WILD-TYPE 212 112 143

Figure S483.  Get High-res Image Gene #68: '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 = 0.012

Table S484.  Gene #68: 'del_7q36.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 17(7Q36.1) MUTATED 57 2 3
DEL PEAK 17(7Q36.1) WILD-TYPE 169 141 158

Figure S484.  Get High-res Image Gene #68: '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 = 0.012

Table S485.  Gene #68: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 17(7Q36.1) MUTATED 3 0 47 12
DEL PEAK 17(7Q36.1) WILD-TYPE 138 60 76 194

Figure S485.  Get High-res Image Gene #68: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q36.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00012 (Fisher's exact test), Q value = 0.059

Table S486.  Gene #68: 'del_7q36.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 17(7Q36.1) MUTATED 34 11 5
DEL PEAK 17(7Q36.1) WILD-TYPE 138 85 125

Figure S486.  Get High-res Image Gene #68: '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 = 0.016

Table S487.  Gene #68: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 17(7Q36.1) MUTATED 31 3 16
DEL PEAK 17(7Q36.1) WILD-TYPE 113 112 123

Figure S487.  Get High-res Image Gene #68: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p23.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S488.  Gene #69: '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 S488.  Get High-res Image Gene #69: '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 = 0.012

Table S489.  Gene #69: 'del_8p23.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 18(8P23.2) MUTATED 107 7 4 1 0
DEL PEAK 18(8P23.2) WILD-TYPE 62 298 15 8 37

Figure S489.  Get High-res Image Gene #69: '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 = 0.012

Table S490.  Gene #69: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 18(8P23.2) MUTATED 84 16 5
DEL PEAK 18(8P23.2) WILD-TYPE 81 73 166

Figure S490.  Get High-res Image Gene #69: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_8p23.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S491.  Gene #69: 'del_8p23.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 18(8P23.2) MUTATED 5 106 5
DEL PEAK 18(8P23.2) WILD-TYPE 146 124 144

Figure S491.  Get High-res Image Gene #69: '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 = 0.012

Table S492.  Gene #69: 'del_8p23.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 18(8P23.2) MUTATED 16 94 6
DEL PEAK 18(8P23.2) WILD-TYPE 200 75 139

Figure S492.  Get High-res Image Gene #69: '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 = 0.012

Table S493.  Gene #69: 'del_8p23.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 18(8P23.2) MUTATED 104 5 7
DEL PEAK 18(8P23.2) WILD-TYPE 122 138 154

Figure S493.  Get High-res Image Gene #69: '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 = 0.012

Table S494.  Gene #69: 'del_8p23.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 18(8P23.2) MUTATED 6 1 75 34
DEL PEAK 18(8P23.2) WILD-TYPE 135 59 48 172

Figure S494.  Get High-res Image Gene #69: '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 = 0.012

Table S495.  Gene #69: 'del_8p23.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 18(8P23.2) MUTATED 68 22 9
DEL PEAK 18(8P23.2) WILD-TYPE 104 74 121

Figure S495.  Get High-res Image Gene #69: '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 = 0.012

Table S496.  Gene #69: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 18(8P23.2) MUTATED 61 4 34
DEL PEAK 18(8P23.2) WILD-TYPE 83 111 105

Figure S496.  Get High-res Image Gene #69: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p21.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S497.  Gene #70: '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 S497.  Get High-res Image Gene #70: '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 = 0.012

Table S498.  Gene #70: 'del_8p21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 19(8P21.2) MUTATED 109 4 3 1 0
DEL PEAK 19(8P21.2) WILD-TYPE 60 301 16 8 37

Figure S498.  Get High-res Image Gene #70: '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 = 0.012

Table S499.  Gene #70: 'del_8p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 19(8P21.2) MUTATED 86 15 2
DEL PEAK 19(8P21.2) WILD-TYPE 79 74 169

Figure S499.  Get High-res Image Gene #70: 'del_8p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_8p21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S500.  Gene #70: 'del_8p21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 19(8P21.2) MUTATED 4 108 2
DEL PEAK 19(8P21.2) WILD-TYPE 147 122 147

Figure S500.  Get High-res Image Gene #70: '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 = 0.012

Table S501.  Gene #70: 'del_8p21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 19(8P21.2) MUTATED 14 97 3
DEL PEAK 19(8P21.2) WILD-TYPE 202 72 142

Figure S501.  Get High-res Image Gene #70: '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 = 0.012

Table S502.  Gene #70: 'del_8p21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 19(8P21.2) MUTATED 106 5 3
DEL PEAK 19(8P21.2) WILD-TYPE 120 138 158

Figure S502.  Get High-res Image Gene #70: '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 = 0.012

Table S503.  Gene #70: 'del_8p21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 19(8P21.2) MUTATED 3 1 80 30
DEL PEAK 19(8P21.2) WILD-TYPE 138 59 43 176

Figure S503.  Get High-res Image Gene #70: '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 = 0.012

Table S504.  Gene #70: 'del_8p21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 19(8P21.2) MUTATED 68 23 7
DEL PEAK 19(8P21.2) WILD-TYPE 104 73 123

Figure S504.  Get High-res Image Gene #70: '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 = 0.012

Table S505.  Gene #70: 'del_8p21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 19(8P21.2) MUTATED 62 2 34
DEL PEAK 19(8P21.2) WILD-TYPE 82 113 105

Figure S505.  Get High-res Image Gene #70: 'del_8p21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S506.  Gene #71: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 20(9P23) MUTATED 67 2 5 1 4
DEL PEAK 20(9P23) WILD-TYPE 102 303 14 8 33

Figure S506.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

'del_9p23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S507.  Gene #71: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 20(9P23) MUTATED 44 18 8
DEL PEAK 20(9P23) WILD-TYPE 121 71 163

Figure S507.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9p23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S508.  Gene #71: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 20(9P23) MUTATED 5 62 11
DEL PEAK 20(9P23) WILD-TYPE 146 168 138

Figure S508.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9p23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S509.  Gene #71: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 20(9P23) MUTATED 13 54 11
DEL PEAK 20(9P23) WILD-TYPE 203 115 134

Figure S509.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S510.  Gene #71: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 20(9P23) MUTATED 57 7 14
DEL PEAK 20(9P23) WILD-TYPE 169 136 147

Figure S510.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9p23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S511.  Gene #71: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 20(9P23) MUTATED 11 1 47 19
DEL PEAK 20(9P23) WILD-TYPE 130 59 76 187

Figure S511.  Get High-res Image Gene #71: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q21.2' versus 'MRNA_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.03

Table S512.  Gene #72: 'del_9q21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 21(9Q21.2) MUTATED 0 9 0 0
DEL PEAK 21(9Q21.2) WILD-TYPE 14 8 12 10

Figure S512.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q21.2' versus 'MRNA_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S513.  Gene #72: '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 S513.  Get High-res Image Gene #72: '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 = 0.012

Table S514.  Gene #72: 'del_9q21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 21(9Q21.2) MUTATED 112 3 7 2 5
DEL PEAK 21(9Q21.2) WILD-TYPE 57 302 12 7 32

Figure S514.  Get High-res Image Gene #72: '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 = 0.012

Table S515.  Gene #72: 'del_9q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 21(9Q21.2) MUTATED 78 20 15
DEL PEAK 21(9Q21.2) WILD-TYPE 87 69 156

Figure S515.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q21.2' versus 'RPPA_CNMF'

P value = 0.00035 (Fisher's exact test), Q value = 0.16

Table S516.  Gene #72: 'del_9q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
DEL PEAK 21(9Q21.2) MUTATED 6 12 1 2 1 6
DEL PEAK 21(9Q21.2) WILD-TYPE 35 25 38 10 40 18

Figure S516.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S517.  Gene #72: 'del_9q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 21(9Q21.2) MUTATED 8 103 16
DEL PEAK 21(9Q21.2) WILD-TYPE 143 127 133

Figure S517.  Get High-res Image Gene #72: '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 = 0.012

Table S518.  Gene #72: 'del_9q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 21(9Q21.2) MUTATED 21 90 16
DEL PEAK 21(9Q21.2) WILD-TYPE 195 79 129

Figure S518.  Get High-res Image Gene #72: '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 = 0.012

Table S519.  Gene #72: 'del_9q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 21(9Q21.2) MUTATED 96 13 17
DEL PEAK 21(9Q21.2) WILD-TYPE 130 130 144

Figure S519.  Get High-res Image Gene #72: '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 = 0.012

Table S520.  Gene #72: 'del_9q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 21(9Q21.2) MUTATED 17 2 70 37
DEL PEAK 21(9Q21.2) WILD-TYPE 124 58 53 169

Figure S520.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q21.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00037 (Fisher's exact test), Q value = 0.17

Table S521.  Gene #72: 'del_9q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 21(9Q21.2) MUTATED 61 29 20
DEL PEAK 21(9Q21.2) WILD-TYPE 111 67 110

Figure S521.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9q21.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S522.  Gene #72: 'del_9q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 21(9Q21.2) MUTATED 61 16 33
DEL PEAK 21(9Q21.2) WILD-TYPE 83 99 106

Figure S522.  Get High-res Image Gene #72: 'del_9q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q34.2' versus 'MRNA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S523.  Gene #73: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 22(9Q34.2) MUTATED 0 9 0 0
DEL PEAK 22(9Q34.2) WILD-TYPE 14 8 12 10

Figure S523.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q34.2' versus 'MRNA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S524.  Gene #73: '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 S524.  Get High-res Image Gene #73: '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 = 0.012

Table S525.  Gene #73: 'del_9q34.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 22(9Q34.2) MUTATED 117 4 6 1 4
DEL PEAK 22(9Q34.2) WILD-TYPE 52 301 13 8 33

Figure S525.  Get High-res Image Gene #73: '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 = 0.012

Table S526.  Gene #73: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 22(9Q34.2) MUTATED 78 23 13
DEL PEAK 22(9Q34.2) WILD-TYPE 87 66 158

Figure S526.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q34.2' versus 'RPPA_CNMF'

P value = 0.00045 (Fisher's exact test), Q value = 0.2

Table S527.  Gene #73: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
DEL PEAK 22(9Q34.2) MUTATED 7 13 2 2 1 6
DEL PEAK 22(9Q34.2) WILD-TYPE 34 24 37 10 40 18

Figure S527.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q34.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S528.  Gene #73: 'del_9q34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 22(9Q34.2) MUTATED 8 105 17
DEL PEAK 22(9Q34.2) WILD-TYPE 143 125 132

Figure S528.  Get High-res Image Gene #73: '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 = 0.012

Table S529.  Gene #73: 'del_9q34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 22(9Q34.2) MUTATED 25 89 16
DEL PEAK 22(9Q34.2) WILD-TYPE 191 80 129

Figure S529.  Get High-res Image Gene #73: '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 = 0.012

Table S530.  Gene #73: 'del_9q34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 22(9Q34.2) MUTATED 98 13 18
DEL PEAK 22(9Q34.2) WILD-TYPE 128 130 143

Figure S530.  Get High-res Image Gene #73: '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 = 0.012

Table S531.  Gene #73: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 22(9Q34.2) MUTATED 17 2 70 40
DEL PEAK 22(9Q34.2) WILD-TYPE 124 58 53 166

Figure S531.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q34.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.035

Table S532.  Gene #73: 'del_9q34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 22(9Q34.2) MUTATED 64 27 20
DEL PEAK 22(9Q34.2) WILD-TYPE 108 69 110

Figure S532.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9q34.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S533.  Gene #73: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 22(9Q34.2) MUTATED 65 17 29
DEL PEAK 22(9Q34.2) WILD-TYPE 79 98 110

Figure S533.  Get High-res Image Gene #73: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10q23.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S534.  Gene #74: 'del_10q23.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 23(10Q23.31) MUTATED 70 5 2 0 0
DEL PEAK 23(10Q23.31) WILD-TYPE 99 300 17 9 37

Figure S534.  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 = 0.012

Table S535.  Gene #74: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 23(10Q23.31) MUTATED 49 13 6
DEL PEAK 23(10Q23.31) WILD-TYPE 116 76 165

Figure S535.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_10q23.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S536.  Gene #74: 'del_10q23.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 23(10Q23.31) MUTATED 4 62 8
DEL PEAK 23(10Q23.31) WILD-TYPE 147 168 141

Figure S536.  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 = 0.012

Table S537.  Gene #74: 'del_10q23.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 23(10Q23.31) MUTATED 14 52 8
DEL PEAK 23(10Q23.31) WILD-TYPE 202 117 137

Figure S537.  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 = 0.012

Table S538.  Gene #74: 'del_10q23.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 23(10Q23.31) MUTATED 61 7 8
DEL PEAK 23(10Q23.31) WILD-TYPE 165 136 153

Figure S538.  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 = 0.012

Table S539.  Gene #74: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 23(10Q23.31) MUTATED 9 1 42 24
DEL PEAK 23(10Q23.31) WILD-TYPE 132 59 81 182

Figure S539.  Get High-res Image Gene #74: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_10q23.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S540.  Gene #74: 'del_10q23.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 23(10Q23.31) MUTATED 41 7 19
DEL PEAK 23(10Q23.31) WILD-TYPE 103 108 120

Figure S540.  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 = 0.012

Table S541.  Gene #75: 'del_11p15.5' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 24(11P15.5) MUTATED 94 1 6 4 1
DEL PEAK 24(11P15.5) WILD-TYPE 75 304 13 5 36

Figure S541.  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 = 0.012

Table S542.  Gene #75: 'del_11p15.5' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 24(11P15.5) MUTATED 74 17 6
DEL PEAK 24(11P15.5) WILD-TYPE 91 72 165

Figure S542.  Get High-res Image Gene #75: 'del_11p15.5' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11p15.5' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S543.  Gene #75: 'del_11p15.5' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 24(11P15.5) MUTATED 3 88 12
DEL PEAK 24(11P15.5) WILD-TYPE 148 142 137

Figure S543.  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 = 0.012

Table S544.  Gene #75: 'del_11p15.5' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 24(11P15.5) MUTATED 15 76 12
DEL PEAK 24(11P15.5) WILD-TYPE 201 93 133

Figure S544.  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 = 0.012

Table S545.  Gene #75: 'del_11p15.5' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 24(11P15.5) MUTATED 84 8 13
DEL PEAK 24(11P15.5) WILD-TYPE 142 135 148

Figure S545.  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 = 0.012

Table S546.  Gene #75: 'del_11p15.5' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 24(11P15.5) MUTATED 13 1 64 27
DEL PEAK 24(11P15.5) WILD-TYPE 128 59 59 179

Figure S546.  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 = 0.012

Table S547.  Gene #75: 'del_11p15.5' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 24(11P15.5) MUTATED 66 18 13
DEL PEAK 24(11P15.5) WILD-TYPE 106 78 117

Figure S547.  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 = 0.012

Table S548.  Gene #75: 'del_11p15.5' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 24(11P15.5) MUTATED 62 12 23
DEL PEAK 24(11P15.5) WILD-TYPE 82 103 116

Figure S548.  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 = 0.012

Table S549.  Gene #76: 'del_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 25(11Q14.1) MUTATED 61 0 4 4 1
DEL PEAK 25(11Q14.1) WILD-TYPE 108 305 15 5 36

Figure S549.  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 = 0.012

Table S550.  Gene #76: 'del_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 25(11Q14.1) MUTATED 51 10 5
DEL PEAK 25(11Q14.1) WILD-TYPE 114 79 166

Figure S550.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11q14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S551.  Gene #76: 'del_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 25(11Q14.1) MUTATED 2 59 7
DEL PEAK 25(11Q14.1) WILD-TYPE 149 171 142

Figure S551.  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 = 0.012

Table S552.  Gene #76: 'del_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 25(11Q14.1) MUTATED 8 54 6
DEL PEAK 25(11Q14.1) WILD-TYPE 208 115 139

Figure S552.  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 = 0.012

Table S553.  Gene #76: 'del_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 25(11Q14.1) MUTATED 56 6 8
DEL PEAK 25(11Q14.1) WILD-TYPE 170 137 153

Figure S553.  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 = 0.012

Table S554.  Gene #76: 'del_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 25(11Q14.1) MUTATED 6 0 46 18
DEL PEAK 25(11Q14.1) WILD-TYPE 135 60 77 188

Figure S554.  Get High-res Image Gene #76: 'del_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_11q14.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S555.  Gene #76: 'del_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 25(11Q14.1) MUTATED 46 12 7
DEL PEAK 25(11Q14.1) WILD-TYPE 126 84 123

Figure S555.  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 = 0.012

Table S556.  Gene #76: 'del_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 25(11Q14.1) MUTATED 42 6 17
DEL PEAK 25(11Q14.1) WILD-TYPE 102 109 122

Figure S556.  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 = 0.012

Table S557.  Gene #77: 'del_11q25' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 26(11Q25) MUTATED 77 3 6 4 3
DEL PEAK 26(11Q25) WILD-TYPE 92 302 13 5 34

Figure S557.  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 = 0.012

Table S558.  Gene #77: 'del_11q25' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 26(11Q25) MUTATED 66 11 7
DEL PEAK 26(11Q25) WILD-TYPE 99 78 164

Figure S558.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_11q25' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S559.  Gene #77: 'del_11q25' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 26(11Q25) MUTATED 6 75 10
DEL PEAK 26(11Q25) WILD-TYPE 145 155 139

Figure S559.  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 = 0.012

Table S560.  Gene #77: 'del_11q25' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 26(11Q25) MUTATED 17 65 9
DEL PEAK 26(11Q25) WILD-TYPE 199 104 136

Figure S560.  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 = 0.012

Table S561.  Gene #77: 'del_11q25' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 26(11Q25) MUTATED 68 11 12
DEL PEAK 26(11Q25) WILD-TYPE 158 132 149

Figure S561.  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 = 0.012

Table S562.  Gene #77: 'del_11q25' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 26(11Q25) MUTATED 7 1 52 31
DEL PEAK 26(11Q25) WILD-TYPE 134 59 71 175

Figure S562.  Get High-res Image Gene #77: 'del_11q25' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_11q25' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S563.  Gene #77: 'del_11q25' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 26(11Q25) MUTATED 53 18 11
DEL PEAK 26(11Q25) WILD-TYPE 119 78 119

Figure S563.  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 = 0.012

Table S564.  Gene #77: 'del_11q25' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 26(11Q25) MUTATED 49 8 25
DEL PEAK 26(11Q25) WILD-TYPE 95 107 114

Figure S564.  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 = 0.012

Table S565.  Gene #78: 'del_12q23.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 27(12Q23.1) MUTATED 54 0 1 0 1
DEL PEAK 27(12Q23.1) WILD-TYPE 115 305 18 9 36

Figure S565.  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 = 0.012

Table S566.  Gene #78: 'del_12q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 27(12Q23.1) MUTATED 42 6 0
DEL PEAK 27(12Q23.1) WILD-TYPE 123 83 171

Figure S566.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_12q23.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S567.  Gene #78: 'del_12q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 27(12Q23.1) MUTATED 1 50 4
DEL PEAK 27(12Q23.1) WILD-TYPE 150 180 145

Figure S567.  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 = 0.012

Table S568.  Gene #78: 'del_12q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 27(12Q23.1) MUTATED 3 47 5
DEL PEAK 27(12Q23.1) WILD-TYPE 213 122 140

Figure S568.  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 = 0.012

Table S569.  Gene #78: 'del_12q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 27(12Q23.1) MUTATED 46 6 2
DEL PEAK 27(12Q23.1) WILD-TYPE 180 137 159

Figure S569.  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 = 0.012

Table S570.  Gene #78: 'del_12q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 27(12Q23.1) MUTATED 0 1 37 16
DEL PEAK 27(12Q23.1) WILD-TYPE 141 59 86 190

Figure S570.  Get High-res Image Gene #78: 'del_12q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_12q23.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S571.  Gene #78: 'del_12q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 27(12Q23.1) MUTATED 32 11 4
DEL PEAK 27(12Q23.1) WILD-TYPE 140 85 126

Figure S571.  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 = 1e-05 (Fisher's exact test), Q value = 0.012

Table S572.  Gene #78: 'del_12q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 27(12Q23.1) MUTATED 30 2 15
DEL PEAK 27(12Q23.1) WILD-TYPE 114 113 124

Figure S572.  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 = 0.012

Table S573.  Gene #79: 'del_12q24.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 28(12Q24.33) MUTATED 63 1 1 0 1
DEL PEAK 28(12Q24.33) WILD-TYPE 106 304 18 9 36

Figure S573.  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 = 0.012

Table S574.  Gene #79: 'del_12q24.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 28(12Q24.33) MUTATED 50 8 3
DEL PEAK 28(12Q24.33) WILD-TYPE 115 81 168

Figure S574.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_12q24.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S575.  Gene #79: 'del_12q24.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 28(12Q24.33) MUTATED 1 61 3
DEL PEAK 28(12Q24.33) WILD-TYPE 150 169 146

Figure S575.  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 = 0.012

Table S576.  Gene #79: 'del_12q24.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 28(12Q24.33) MUTATED 9 52 4
DEL PEAK 28(12Q24.33) WILD-TYPE 207 117 141

Figure S576.  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 = 0.012

Table S577.  Gene #79: 'del_12q24.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 28(12Q24.33) MUTATED 55 6 3
DEL PEAK 28(12Q24.33) WILD-TYPE 171 137 158

Figure S577.  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 = 0.012

Table S578.  Gene #79: 'del_12q24.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 28(12Q24.33) MUTATED 2 1 39 22
DEL PEAK 28(12Q24.33) WILD-TYPE 139 59 84 184

Figure S578.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_12q24.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S579.  Gene #79: 'del_12q24.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 28(12Q24.33) MUTATED 40 12 7
DEL PEAK 28(12Q24.33) WILD-TYPE 132 84 123

Figure S579.  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 = 0.012

Table S580.  Gene #79: 'del_12q24.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 28(12Q24.33) MUTATED 37 4 18
DEL PEAK 28(12Q24.33) WILD-TYPE 107 111 121

Figure S580.  Get High-res Image Gene #79: 'del_12q24.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_13q11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S581.  Gene #80: 'del_13q11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 29(13Q11) MUTATED 80 3 6 3 6
DEL PEAK 29(13Q11) WILD-TYPE 89 302 13 6 31

Figure S581.  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 = 0.012

Table S582.  Gene #80: 'del_13q11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 29(13Q11) MUTATED 57 17 10
DEL PEAK 29(13Q11) WILD-TYPE 108 72 161

Figure S582.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_13q11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S583.  Gene #80: 'del_13q11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 29(13Q11) MUTATED 6 75 16
DEL PEAK 29(13Q11) WILD-TYPE 145 155 133

Figure S583.  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 = 0.012

Table S584.  Gene #80: 'del_13q11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 29(13Q11) MUTATED 21 61 15
DEL PEAK 29(13Q11) WILD-TYPE 195 108 130

Figure S584.  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 = 0.012

Table S585.  Gene #80: 'del_13q11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 29(13Q11) MUTATED 71 13 13
DEL PEAK 29(13Q11) WILD-TYPE 155 130 148

Figure S585.  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 = 0.012

Table S586.  Gene #80: 'del_13q11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 29(13Q11) MUTATED 12 2 48 35
DEL PEAK 29(13Q11) WILD-TYPE 129 58 75 171

Figure S586.  Get High-res Image Gene #80: 'del_13q11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_13q14.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S587.  Gene #81: 'del_13q14.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 30(13Q14.2) MUTATED 86 5 8 3 5
DEL PEAK 30(13Q14.2) WILD-TYPE 83 300 11 6 32

Figure S587.  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 = 0.012

Table S588.  Gene #81: 'del_13q14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 30(13Q14.2) MUTATED 60 20 14
DEL PEAK 30(13Q14.2) WILD-TYPE 105 69 157

Figure S588.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_13q14.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S589.  Gene #81: 'del_13q14.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 30(13Q14.2) MUTATED 7 78 19
DEL PEAK 30(13Q14.2) WILD-TYPE 144 152 130

Figure S589.  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 = 0.012

Table S590.  Gene #81: 'del_13q14.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 30(13Q14.2) MUTATED 26 60 18
DEL PEAK 30(13Q14.2) WILD-TYPE 190 109 127

Figure S590.  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 = 0.012

Table S591.  Gene #81: 'del_13q14.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 30(13Q14.2) MUTATED 72 17 17
DEL PEAK 30(13Q14.2) WILD-TYPE 154 126 144

Figure S591.  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 = 0.012

Table S592.  Gene #81: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 30(13Q14.2) MUTATED 15 4 47 40
DEL PEAK 30(13Q14.2) WILD-TYPE 126 56 76 166

Figure S592.  Get High-res Image Gene #81: 'del_13q14.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_14q13.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S593.  Gene #82: 'del_14q13.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 31(14Q13.1) MUTATED 63 2 2 3 3
DEL PEAK 31(14Q13.1) WILD-TYPE 106 303 17 6 34

Figure S593.  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 = 0.012

Table S594.  Gene #82: 'del_14q13.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 31(14Q13.1) MUTATED 51 8 5
DEL PEAK 31(14Q13.1) WILD-TYPE 114 81 166

Figure S594.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_14q13.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S595.  Gene #82: 'del_14q13.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 31(14Q13.1) MUTATED 4 61 6
DEL PEAK 31(14Q13.1) WILD-TYPE 147 169 143

Figure S595.  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 = 0.012

Table S596.  Gene #82: 'del_14q13.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 31(14Q13.1) MUTATED 11 54 6
DEL PEAK 31(14Q13.1) WILD-TYPE 205 115 139

Figure S596.  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 = 0.012

Table S597.  Gene #82: 'del_14q13.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 31(14Q13.1) MUTATED 58 10 4
DEL PEAK 31(14Q13.1) WILD-TYPE 168 133 157

Figure S597.  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 = 0.012

Table S598.  Gene #82: 'del_14q13.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 31(14Q13.1) MUTATED 4 1 44 23
DEL PEAK 31(14Q13.1) WILD-TYPE 137 59 79 183

Figure S598.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_14q13.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S599.  Gene #82: 'del_14q13.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 31(14Q13.1) MUTATED 38 5 21
DEL PEAK 31(14Q13.1) WILD-TYPE 106 110 118

Figure S599.  Get High-res Image Gene #82: 'del_14q13.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_15q15.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S600.  Gene #83: 'del_15q15.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 32(15Q15.1) MUTATED 119 5 8 5 3
DEL PEAK 32(15Q15.1) WILD-TYPE 50 300 11 4 34

Figure S600.  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 = 0.012

Table S601.  Gene #83: 'del_15q15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 32(15Q15.1) MUTATED 90 23 12
DEL PEAK 32(15Q15.1) WILD-TYPE 75 66 159

Figure S601.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_15q15.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S602.  Gene #83: 'del_15q15.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 32(15Q15.1) MUTATED 9 119 12
DEL PEAK 32(15Q15.1) WILD-TYPE 142 111 137

Figure S602.  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 = 0.012

Table S603.  Gene #83: 'del_15q15.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 32(15Q15.1) MUTATED 29 99 12
DEL PEAK 32(15Q15.1) WILD-TYPE 187 70 133

Figure S603.  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 = 0.012

Table S604.  Gene #83: 'del_15q15.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 32(15Q15.1) MUTATED 112 14 12
DEL PEAK 32(15Q15.1) WILD-TYPE 114 129 149

Figure S604.  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 = 0.012

Table S605.  Gene #83: 'del_15q15.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 32(15Q15.1) MUTATED 11 2 79 46
DEL PEAK 32(15Q15.1) WILD-TYPE 130 58 44 160

Figure S605.  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 = 0.012

Table S606.  Gene #83: 'del_15q15.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 32(15Q15.1) MUTATED 70 34 18
DEL PEAK 32(15Q15.1) WILD-TYPE 102 62 112

Figure S606.  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 = 0.012

Table S607.  Gene #83: 'del_15q15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 32(15Q15.1) MUTATED 67 12 43
DEL PEAK 32(15Q15.1) WILD-TYPE 77 103 96

Figure S607.  Get High-res Image Gene #83: 'del_15q15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_15q23' versus 'MRNA_CHIERARCHICAL'

P value = 0.00053 (Fisher's exact test), Q value = 0.23

Table S608.  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 33(15Q23) MUTATED 1 5 0 0 0
DEL PEAK 33(15Q23) WILD-TYPE 13 4 7 7 16

Figure S608.  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 = 0.012

Table S609.  Gene #84: 'del_15q23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 33(15Q23) MUTATED 95 4 7 6 3
DEL PEAK 33(15Q23) WILD-TYPE 74 301 12 3 34

Figure S609.  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 = 0.012

Table S610.  Gene #84: 'del_15q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 33(15Q23) MUTATED 77 16 8
DEL PEAK 33(15Q23) WILD-TYPE 88 73 163

Figure S610.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_15q23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S611.  Gene #84: 'del_15q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 33(15Q23) MUTATED 8 97 9
DEL PEAK 33(15Q23) WILD-TYPE 143 133 140

Figure S611.  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 = 0.012

Table S612.  Gene #84: 'del_15q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 33(15Q23) MUTATED 21 85 8
DEL PEAK 33(15Q23) WILD-TYPE 195 84 137

Figure S612.  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 = 0.012

Table S613.  Gene #84: 'del_15q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 33(15Q23) MUTATED 90 14 9
DEL PEAK 33(15Q23) WILD-TYPE 136 129 152

Figure S613.  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 = 0.012

Table S614.  Gene #84: 'del_15q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 33(15Q23) MUTATED 8 2 65 38
DEL PEAK 33(15Q23) WILD-TYPE 133 58 58 168

Figure S614.  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 = 0.012

Table S615.  Gene #84: 'del_15q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 33(15Q23) MUTATED 64 22 12
DEL PEAK 33(15Q23) WILD-TYPE 108 74 118

Figure S615.  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 = 0.012

Table S616.  Gene #84: 'del_15q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 33(15Q23) MUTATED 59 7 32
DEL PEAK 33(15Q23) WILD-TYPE 85 108 107

Figure S616.  Get High-res Image Gene #84: 'del_15q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16p13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S617.  Gene #85: 'del_16p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 34(16P13.3) MUTATED 84 2 3 1 2
DEL PEAK 34(16P13.3) WILD-TYPE 85 303 16 8 35

Figure S617.  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 = 0.012

Table S618.  Gene #85: 'del_16p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 34(16P13.3) MUTATED 62 17 4
DEL PEAK 34(16P13.3) WILD-TYPE 103 72 167

Figure S618.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S619.  Gene #85: 'del_16p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 34(16P13.3) MUTATED 2 82 7
DEL PEAK 34(16P13.3) WILD-TYPE 149 148 142

Figure S619.  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 = 0.012

Table S620.  Gene #85: 'del_16p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 34(16P13.3) MUTATED 13 71 7
DEL PEAK 34(16P13.3) WILD-TYPE 203 98 138

Figure S620.  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 = 0.012

Table S621.  Gene #85: 'del_16p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 34(16P13.3) MUTATED 76 7 7
DEL PEAK 34(16P13.3) WILD-TYPE 150 136 154

Figure S621.  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 = 0.012

Table S622.  Gene #85: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 34(16P13.3) MUTATED 5 1 59 25
DEL PEAK 34(16P13.3) WILD-TYPE 136 59 64 181

Figure S622.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16p13.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S623.  Gene #85: 'del_16p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 34(16P13.3) MUTATED 51 21 10
DEL PEAK 34(16P13.3) WILD-TYPE 121 75 120

Figure S623.  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 = 0.012

Table S624.  Gene #85: 'del_16p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 34(16P13.3) MUTATED 49 6 27
DEL PEAK 34(16P13.3) WILD-TYPE 95 109 112

Figure S624.  Get High-res Image Gene #85: 'del_16p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q21' versus 'MRNA_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.04

Table S625.  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 35(16Q21) MUTATED 1 7 0 0 1
DEL PEAK 35(16Q21) WILD-TYPE 13 2 7 7 15

Figure S625.  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 = 0.012

Table S626.  Gene #86: 'del_16q21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 35(16Q21) MUTATED 128 14 7 1 4
DEL PEAK 35(16Q21) WILD-TYPE 41 291 12 8 33

Figure S626.  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 = 0.012

Table S627.  Gene #86: 'del_16q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 35(16Q21) MUTATED 93 26 16
DEL PEAK 35(16Q21) WILD-TYPE 72 63 155

Figure S627.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S628.  Gene #86: 'del_16q21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 35(16Q21) MUTATED 14 123 16
DEL PEAK 35(16Q21) WILD-TYPE 137 107 133

Figure S628.  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 = 0.012

Table S629.  Gene #86: 'del_16q21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 35(16Q21) MUTATED 33 105 15
DEL PEAK 35(16Q21) WILD-TYPE 183 64 130

Figure S629.  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 = 0.012

Table S630.  Gene #86: 'del_16q21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 35(16Q21) MUTATED 111 22 17
DEL PEAK 35(16Q21) WILD-TYPE 115 121 144

Figure S630.  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 = 0.012

Table S631.  Gene #86: 'del_16q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 35(16Q21) MUTATED 16 7 82 45
DEL PEAK 35(16Q21) WILD-TYPE 125 53 41 161

Figure S631.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q21' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S632.  Gene #86: 'del_16q21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 35(16Q21) MUTATED 78 31 22
DEL PEAK 35(16Q21) WILD-TYPE 94 65 108

Figure S632.  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 = 0.012

Table S633.  Gene #86: 'del_16q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 35(16Q21) MUTATED 72 16 43
DEL PEAK 35(16Q21) WILD-TYPE 72 99 96

Figure S633.  Get High-res Image Gene #86: 'del_16q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S634.  Gene #87: 'del_16q22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 36(16Q22.3) MUTATED 129 17 7 1 4
DEL PEAK 36(16Q22.3) WILD-TYPE 40 288 12 8 33

Figure S634.  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 = 0.012

Table S635.  Gene #87: 'del_16q22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 36(16Q22.3) MUTATED 91 28 19
DEL PEAK 36(16Q22.3) WILD-TYPE 74 61 152

Figure S635.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S636.  Gene #87: 'del_16q22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 36(16Q22.3) MUTATED 15 125 18
DEL PEAK 36(16Q22.3) WILD-TYPE 136 105 131

Figure S636.  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 = 0.012

Table S637.  Gene #87: 'del_16q22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 36(16Q22.3) MUTATED 36 105 17
DEL PEAK 36(16Q22.3) WILD-TYPE 180 64 128

Figure S637.  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 = 0.012

Table S638.  Gene #87: 'del_16q22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 36(16Q22.3) MUTATED 112 23 19
DEL PEAK 36(16Q22.3) WILD-TYPE 114 120 142

Figure S638.  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 = 0.012

Table S639.  Gene #87: 'del_16q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 36(16Q22.3) MUTATED 18 7 84 45
DEL PEAK 36(16Q22.3) WILD-TYPE 123 53 39 161

Figure S639.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S640.  Gene #87: 'del_16q22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 36(16Q22.3) MUTATED 75 34 25
DEL PEAK 36(16Q22.3) WILD-TYPE 97 62 105

Figure S640.  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 = 0.012

Table S641.  Gene #87: 'del_16q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 36(16Q22.3) MUTATED 68 16 50
DEL PEAK 36(16Q22.3) WILD-TYPE 76 99 89

Figure S641.  Get High-res Image Gene #87: 'del_16q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_16q23.1' versus 'MRNA_CHIERARCHICAL'

P value = 0.00014 (Fisher's exact test), Q value = 0.068

Table S642.  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 37(16Q23.1) MUTATED 4 7 0 0 1
DEL PEAK 37(16Q23.1) WILD-TYPE 10 2 7 7 15

Figure S642.  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 = 0.012

Table S643.  Gene #88: 'del_16q23.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 37(16Q23.1) MUTATED 134 19 8 1 4
DEL PEAK 37(16Q23.1) WILD-TYPE 35 286 11 8 33

Figure S643.  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 = 0.012

Table S644.  Gene #88: 'del_16q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 37(16Q23.1) MUTATED 96 27 19
DEL PEAK 37(16Q23.1) WILD-TYPE 69 62 152

Figure S644.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_16q23.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S645.  Gene #88: 'del_16q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 37(16Q23.1) MUTATED 16 133 17
DEL PEAK 37(16Q23.1) WILD-TYPE 135 97 132

Figure S645.  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 = 0.012

Table S646.  Gene #88: 'del_16q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 37(16Q23.1) MUTATED 38 112 16
DEL PEAK 37(16Q23.1) WILD-TYPE 178 57 129

Figure S646.  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 = 0.012

Table S647.  Gene #88: 'del_16q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 37(16Q23.1) MUTATED 120 23 18
DEL PEAK 37(16Q23.1) WILD-TYPE 106 120 143

Figure S647.  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 = 0.012

Table S648.  Gene #88: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 37(16Q23.1) MUTATED 16 7 92 46
DEL PEAK 37(16Q23.1) WILD-TYPE 125 53 31 160

Figure S648.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_16q23.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S649.  Gene #88: 'del_16q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 37(16Q23.1) MUTATED 80 35 23
DEL PEAK 37(16Q23.1) WILD-TYPE 92 61 107

Figure S649.  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 = 0.012

Table S650.  Gene #88: 'del_16q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 37(16Q23.1) MUTATED 72 15 51
DEL PEAK 37(16Q23.1) WILD-TYPE 72 100 88

Figure S650.  Get High-res Image Gene #88: 'del_16q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17p13.3' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S651.  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 38(17P13.3) MUTATED 1 7 1 0 0
DEL PEAK 38(17P13.3) WILD-TYPE 13 2 6 7 16

Figure S651.  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 = 0.012

Table S652.  Gene #89: 'del_17p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 38(17P13.3) MUTATED 109 4 5 1 3
DEL PEAK 38(17P13.3) WILD-TYPE 60 301 14 8 34

Figure S652.  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 = 0.012

Table S653.  Gene #89: 'del_17p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 38(17P13.3) MUTATED 71 20 13
DEL PEAK 38(17P13.3) WILD-TYPE 94 69 158

Figure S653.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S654.  Gene #89: 'del_17p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 38(17P13.3) MUTATED 6 98 15
DEL PEAK 38(17P13.3) WILD-TYPE 145 132 134

Figure S654.  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 = 0.012

Table S655.  Gene #89: 'del_17p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 38(17P13.3) MUTATED 19 84 16
DEL PEAK 38(17P13.3) WILD-TYPE 197 85 129

Figure S655.  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 = 0.012

Table S656.  Gene #89: 'del_17p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 38(17P13.3) MUTATED 91 13 15
DEL PEAK 38(17P13.3) WILD-TYPE 135 130 146

Figure S656.  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 = 0.012

Table S657.  Gene #89: 'del_17p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 38(17P13.3) MUTATED 15 2 65 37
DEL PEAK 38(17P13.3) WILD-TYPE 126 58 58 169

Figure S657.  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 = 0.012

Table S658.  Gene #89: 'del_17p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 38(17P13.3) MUTATED 60 26 14
DEL PEAK 38(17P13.3) WILD-TYPE 112 70 116

Figure S658.  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 = 5e-05 (Fisher's exact test), Q value = 0.026

Table S659.  Gene #89: 'del_17p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 38(17P13.3) MUTATED 53 15 32
DEL PEAK 38(17P13.3) WILD-TYPE 91 100 107

Figure S659.  Get High-res Image Gene #89: 'del_17p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17p11.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S660.  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 39(17P11.2) MUTATED 0 8 1 0 0
DEL PEAK 39(17P11.2) WILD-TYPE 14 1 6 7 16

Figure S660.  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 = 0.012

Table S661.  Gene #90: 'del_17p11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 39(17P11.2) MUTATED 116 4 4 1 3
DEL PEAK 39(17P11.2) WILD-TYPE 53 301 15 8 34

Figure S661.  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 = 0.012

Table S662.  Gene #90: 'del_17p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 39(17P11.2) MUTATED 79 21 12
DEL PEAK 39(17P11.2) WILD-TYPE 86 68 159

Figure S662.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17p11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S663.  Gene #90: 'del_17p11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 39(17P11.2) MUTATED 4 108 14
DEL PEAK 39(17P11.2) WILD-TYPE 147 122 135

Figure S663.  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 = 0.012

Table S664.  Gene #90: 'del_17p11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 39(17P11.2) MUTATED 18 93 15
DEL PEAK 39(17P11.2) WILD-TYPE 198 76 130

Figure S664.  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 = 0.012

Table S665.  Gene #90: 'del_17p11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 39(17P11.2) MUTATED 97 11 16
DEL PEAK 39(17P11.2) WILD-TYPE 129 132 145

Figure S665.  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 = 0.012

Table S666.  Gene #90: 'del_17p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 39(17P11.2) MUTATED 15 1 72 36
DEL PEAK 39(17P11.2) WILD-TYPE 126 59 51 170

Figure S666.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17p11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S667.  Gene #90: 'del_17p11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 39(17P11.2) MUTATED 63 29 15
DEL PEAK 39(17P11.2) WILD-TYPE 109 67 115

Figure S667.  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 = 1e-05 (Fisher's exact test), Q value = 0.012

Table S668.  Gene #90: 'del_17p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 39(17P11.2) MUTATED 57 15 35
DEL PEAK 39(17P11.2) WILD-TYPE 87 100 104

Figure S668.  Get High-res Image Gene #90: 'del_17p11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_17q11.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S669.  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 40(17Q11.2) MUTATED 0 7 0 0 0
DEL PEAK 40(17Q11.2) WILD-TYPE 14 2 7 7 16

Figure S669.  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 = 0.012

Table S670.  Gene #91: 'del_17q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 40(17Q11.2) MUTATED 93 2 5 1 4
DEL PEAK 40(17Q11.2) WILD-TYPE 76 303 14 8 33

Figure S670.  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 = 0.012

Table S671.  Gene #91: 'del_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 40(17Q11.2) MUTATED 58 18 14
DEL PEAK 40(17Q11.2) WILD-TYPE 107 71 157

Figure S671.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S672.  Gene #91: 'del_17q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 40(17Q11.2) MUTATED 6 83 14
DEL PEAK 40(17Q11.2) WILD-TYPE 145 147 135

Figure S672.  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 = 0.012

Table S673.  Gene #91: 'del_17q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 40(17Q11.2) MUTATED 22 66 15
DEL PEAK 40(17Q11.2) WILD-TYPE 194 103 130

Figure S673.  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 = 0.012

Table S674.  Gene #91: 'del_17q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 40(17Q11.2) MUTATED 75 10 16
DEL PEAK 40(17Q11.2) WILD-TYPE 151 133 145

Figure S674.  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 = 0.012

Table S675.  Gene #91: 'del_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 40(17Q11.2) MUTATED 15 2 50 34
DEL PEAK 40(17Q11.2) WILD-TYPE 126 58 73 172

Figure S675.  Get High-res Image Gene #91: 'del_17q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17q21.31' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S676.  Gene #92: 'del_17q21.31' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 41(17Q21.31) MUTATED 0 9 0 0
DEL PEAK 41(17Q21.31) WILD-TYPE 14 8 12 10

Figure S676.  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 = 0.012

Table S677.  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 41(17Q21.31) MUTATED 1 8 0 0 0
DEL PEAK 41(17Q21.31) WILD-TYPE 13 1 7 7 16

Figure S677.  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 = 0.012

Table S678.  Gene #92: 'del_17q21.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 41(17Q21.31) MUTATED 104 1 4 1 4
DEL PEAK 41(17Q21.31) WILD-TYPE 65 304 15 8 33

Figure S678.  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 = 0.012

Table S679.  Gene #92: 'del_17q21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 41(17Q21.31) MUTATED 64 22 13
DEL PEAK 41(17Q21.31) WILD-TYPE 101 67 158

Figure S679.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_17q21.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S680.  Gene #92: 'del_17q21.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 41(17Q21.31) MUTATED 5 91 15
DEL PEAK 41(17Q21.31) WILD-TYPE 146 139 134

Figure S680.  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 = 0.012

Table S681.  Gene #92: 'del_17q21.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 41(17Q21.31) MUTATED 20 76 15
DEL PEAK 41(17Q21.31) WILD-TYPE 196 93 130

Figure S681.  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 = 0.012

Table S682.  Gene #92: 'del_17q21.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 41(17Q21.31) MUTATED 80 12 17
DEL PEAK 41(17Q21.31) WILD-TYPE 146 131 144

Figure S682.  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 = 0.012

Table S683.  Gene #92: 'del_17q21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 41(17Q21.31) MUTATED 17 1 58 33
DEL PEAK 41(17Q21.31) WILD-TYPE 124 59 65 173

Figure S683.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_17q21.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.054

Table S684.  Gene #92: 'del_17q21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 41(17Q21.31) MUTATED 58 21 17
DEL PEAK 41(17Q21.31) WILD-TYPE 114 75 113

Figure S684.  Get High-res Image Gene #92: 'del_17q21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_18q21.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S685.  Gene #93: 'del_18q21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 42(18Q21.2) MUTATED 74 2 8 4 3
DEL PEAK 42(18Q21.2) WILD-TYPE 95 303 11 5 34

Figure S685.  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 = 0.012

Table S686.  Gene #93: 'del_18q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 42(18Q21.2) MUTATED 57 14 10
DEL PEAK 42(18Q21.2) WILD-TYPE 108 75 161

Figure S686.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_18q21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S687.  Gene #93: 'del_18q21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 42(18Q21.2) MUTATED 5 75 11
DEL PEAK 42(18Q21.2) WILD-TYPE 146 155 138

Figure S687.  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 = 0.012

Table S688.  Gene #93: 'del_18q21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 42(18Q21.2) MUTATED 25 56 10
DEL PEAK 42(18Q21.2) WILD-TYPE 191 113 135

Figure S688.  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 = 0.012

Table S689.  Gene #93: 'del_18q21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 42(18Q21.2) MUTATED 72 7 11
DEL PEAK 42(18Q21.2) WILD-TYPE 154 136 150

Figure S689.  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 = 0.012

Table S690.  Gene #93: 'del_18q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 42(18Q21.2) MUTATED 8 1 48 33
DEL PEAK 42(18Q21.2) WILD-TYPE 133 59 75 173

Figure S690.  Get High-res Image Gene #93: 'del_18q21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_18q21.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S691.  Gene #93: 'del_18q21.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 42(18Q21.2) MUTATED 44 10 25
DEL PEAK 42(18Q21.2) WILD-TYPE 100 105 114

Figure S691.  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 = 0.012

Table S692.  Gene #94: 'del_18q23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 43(18Q23) MUTATED 80 2 9 3 4
DEL PEAK 43(18Q23) WILD-TYPE 89 303 10 6 33

Figure S692.  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 = 0.012

Table S693.  Gene #94: 'del_18q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 43(18Q23) MUTATED 62 14 10
DEL PEAK 43(18Q23) WILD-TYPE 103 75 161

Figure S693.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_18q23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S694.  Gene #94: 'del_18q23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 43(18Q23) MUTATED 5 81 11
DEL PEAK 43(18Q23) WILD-TYPE 146 149 138

Figure S694.  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 = 0.012

Table S695.  Gene #94: 'del_18q23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 43(18Q23) MUTATED 23 63 11
DEL PEAK 43(18Q23) WILD-TYPE 193 106 134

Figure S695.  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 = 0.012

Table S696.  Gene #94: 'del_18q23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 43(18Q23) MUTATED 75 9 12
DEL PEAK 43(18Q23) WILD-TYPE 151 134 149

Figure S696.  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 = 0.012

Table S697.  Gene #94: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 43(18Q23) MUTATED 10 2 54 30
DEL PEAK 43(18Q23) WILD-TYPE 131 58 69 176

Figure S697.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_18q23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00026 (Fisher's exact test), Q value = 0.12

Table S698.  Gene #94: 'del_18q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 43(18Q23) MUTATED 49 22 13
DEL PEAK 43(18Q23) WILD-TYPE 123 74 117

Figure S698.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_18q23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00013 (Fisher's exact test), Q value = 0.063

Table S699.  Gene #94: 'del_18q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 43(18Q23) MUTATED 44 11 29
DEL PEAK 43(18Q23) WILD-TYPE 100 104 110

Figure S699.  Get High-res Image Gene #94: 'del_18q23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19p13.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S700.  Gene #95: 'del_19p13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 44(19P13.3) MUTATED 0 11 0 0
DEL PEAK 44(19P13.3) WILD-TYPE 14 6 12 10

Figure S700.  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 = 0.012

Table S701.  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 44(19P13.3) MUTATED 2 9 0 0 0
DEL PEAK 44(19P13.3) WILD-TYPE 12 0 7 7 16

Figure S701.  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 = 0.012

Table S702.  Gene #95: 'del_19p13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 44(19P13.3) MUTATED 145 0 5 3 1
DEL PEAK 44(19P13.3) WILD-TYPE 24 305 14 6 36

Figure S702.  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 = 0.012

Table S703.  Gene #95: 'del_19p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 44(19P13.3) MUTATED 108 23 5
DEL PEAK 44(19P13.3) WILD-TYPE 57 66 166

Figure S703.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19p13.3' versus 'RPPA_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S704.  Gene #95: 'del_19p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 41 37 39 12 41 24
DEL PEAK 44(19P13.3) MUTATED 7 14 2 0 1 7
DEL PEAK 44(19P13.3) WILD-TYPE 34 23 37 12 40 17

Figure S704.  Get High-res Image Gene #95: 'del_19p13.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_19p13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S705.  Gene #95: 'del_19p13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 44(19P13.3) MUTATED 4 138 9
DEL PEAK 44(19P13.3) WILD-TYPE 147 92 140

Figure S705.  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 = 0.012

Table S706.  Gene #95: 'del_19p13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 44(19P13.3) MUTATED 23 120 8
DEL PEAK 44(19P13.3) WILD-TYPE 193 49 137

Figure S706.  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 = 0.012

Table S707.  Gene #95: 'del_19p13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 44(19P13.3) MUTATED 130 9 10
DEL PEAK 44(19P13.3) WILD-TYPE 96 134 151

Figure S707.  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 = 0.012

Table S708.  Gene #95: 'del_19p13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 44(19P13.3) MUTATED 13 1 98 37
DEL PEAK 44(19P13.3) WILD-TYPE 128 59 25 169

Figure S708.  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 = 0.012

Table S709.  Gene #95: 'del_19p13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 44(19P13.3) MUTATED 83 31 18
DEL PEAK 44(19P13.3) WILD-TYPE 89 65 112

Figure S709.  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 = 0.012

Table S710.  Gene #95: 'del_19p13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 44(19P13.3) MUTATED 78 11 43
DEL PEAK 44(19P13.3) WILD-TYPE 66 104 96

Figure S710.  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 = 0.012

Table S711.  Gene #96: 'del_19p12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 45(19P12) MUTATED 50 1 5 1 1
DEL PEAK 45(19P12) WILD-TYPE 119 304 14 8 36

Figure S711.  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 = 0.012

Table S712.  Gene #96: 'del_19p12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 45(19P12) MUTATED 38 10 4
DEL PEAK 45(19P12) WILD-TYPE 127 79 167

Figure S712.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19p12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S713.  Gene #96: 'del_19p12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 45(19P12) MUTATED 5 46 6
DEL PEAK 45(19P12) WILD-TYPE 146 184 143

Figure S713.  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 = 0.012

Table S714.  Gene #96: 'del_19p12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 45(19P12) MUTATED 13 39 5
DEL PEAK 45(19P12) WILD-TYPE 203 130 140

Figure S714.  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 = 0.012

Table S715.  Gene #96: 'del_19p12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 45(19P12) MUTATED 44 8 5
DEL PEAK 45(19P12) WILD-TYPE 182 135 156

Figure S715.  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 = 0.012

Table S716.  Gene #96: 'del_19p12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 45(19P12) MUTATED 5 2 28 22
DEL PEAK 45(19P12) WILD-TYPE 136 58 95 184

Figure S716.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_19p12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S717.  Gene #96: 'del_19p12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 45(19P12) MUTATED 32 5 13
DEL PEAK 45(19P12) WILD-TYPE 112 110 126

Figure S717.  Get High-res Image Gene #96: 'del_19p12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_19q13.43' versus 'MRNA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.021

Table S718.  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 46(19Q13.43) MUTATED 1 7 1 0 0
DEL PEAK 46(19Q13.43) WILD-TYPE 13 2 6 7 16

Figure S718.  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 = 0.012

Table S719.  Gene #97: 'del_19q13.43' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 46(19Q13.43) MUTATED 61 1 3 1 1
DEL PEAK 46(19Q13.43) WILD-TYPE 108 304 16 8 36

Figure S719.  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 = 0.012

Table S720.  Gene #97: 'del_19q13.43' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 46(19Q13.43) MUTATED 43 11 2
DEL PEAK 46(19Q13.43) WILD-TYPE 122 78 169

Figure S720.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_19q13.43' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S721.  Gene #97: 'del_19q13.43' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 46(19Q13.43) MUTATED 3 58 4
DEL PEAK 46(19Q13.43) WILD-TYPE 148 172 145

Figure S721.  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 = 0.012

Table S722.  Gene #97: 'del_19q13.43' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 46(19Q13.43) MUTATED 11 51 3
DEL PEAK 46(19Q13.43) WILD-TYPE 205 118 142

Figure S722.  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 = 0.012

Table S723.  Gene #97: 'del_19q13.43' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 46(19Q13.43) MUTATED 55 4 4
DEL PEAK 46(19Q13.43) WILD-TYPE 171 139 157

Figure S723.  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 = 0.012

Table S724.  Gene #97: 'del_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 46(19Q13.43) MUTATED 3 1 39 20
DEL PEAK 46(19Q13.43) WILD-TYPE 138 59 84 186

Figure S724.  Get High-res Image Gene #97: 'del_19q13.43' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_19q13.43' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S725.  Gene #97: 'del_19q13.43' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 46(19Q13.43) MUTATED 29 2 25
DEL PEAK 46(19Q13.43) WILD-TYPE 115 113 114

Figure S725.  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 = 0.012

Table S726.  Gene #98: 'del_20p12.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 47(20P12.1) MUTATED 25 6 2 1 2
DEL PEAK 47(20P12.1) WILD-TYPE 144 299 17 8 35

Figure S726.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_20p12.1' versus 'MRNASEQ_CNMF'

P value = 0.00053 (Fisher's exact test), Q value = 0.23

Table S727.  Gene #98: 'del_20p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 47(20P12.1) MUTATED 3 26 6
DEL PEAK 47(20P12.1) WILD-TYPE 148 204 143

Figure S727.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_20p12.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00044 (Fisher's exact test), Q value = 0.2

Table S728.  Gene #98: 'del_20p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 47(20P12.1) MUTATED 8 22 5
DEL PEAK 47(20P12.1) WILD-TYPE 208 147 140

Figure S728.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_20p12.1' versus 'MIRSEQ_CNMF'

P value = 0.00056 (Fisher's exact test), Q value = 0.24

Table S729.  Gene #98: 'del_20p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 47(20P12.1) MUTATED 26 5 4
DEL PEAK 47(20P12.1) WILD-TYPE 200 138 157

Figure S729.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_20p12.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00051 (Fisher's exact test), Q value = 0.22

Table S730.  Gene #98: 'del_20p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 47(20P12.1) MUTATED 7 2 19 7
DEL PEAK 47(20P12.1) WILD-TYPE 134 58 104 199

Figure S730.  Get High-res Image Gene #98: 'del_20p12.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MRNA_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.026

Table S731.  Gene #99: 'del_22q13.32' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 14 17 12 10
DEL PEAK 48(22Q13.32) MUTATED 0 9 0 0
DEL PEAK 48(22Q13.32) WILD-TYPE 14 8 12 10

Figure S731.  Get High-res Image Gene #99: 'del_22q13.32' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_22q13.32' versus 'MRNA_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.016

Table S732.  Gene #99: '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 48(22Q13.32) MUTATED 2 7 0 0 0
DEL PEAK 48(22Q13.32) WILD-TYPE 12 2 7 7 16

Figure S732.  Get High-res Image Gene #99: '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 = 0.012

Table S733.  Gene #99: 'del_22q13.32' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 48(22Q13.32) MUTATED 122 7 4 5 3
DEL PEAK 48(22Q13.32) WILD-TYPE 47 298 15 4 34

Figure S733.  Get High-res Image Gene #99: '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 = 0.012

Table S734.  Gene #99: 'del_22q13.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 48(22Q13.32) MUTATED 84 23 18
DEL PEAK 48(22Q13.32) WILD-TYPE 81 66 153

Figure S734.  Get High-res Image Gene #99: 'del_22q13.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_22q13.32' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S735.  Gene #99: 'del_22q13.32' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 48(22Q13.32) MUTATED 8 111 19
DEL PEAK 48(22Q13.32) WILD-TYPE 143 119 130

Figure S735.  Get High-res Image Gene #99: '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 = 0.012

Table S736.  Gene #99: 'del_22q13.32' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 48(22Q13.32) MUTATED 28 91 19
DEL PEAK 48(22Q13.32) WILD-TYPE 188 78 126

Figure S736.  Get High-res Image Gene #99: '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 = 0.012

Table S737.  Gene #99: 'del_22q13.32' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 48(22Q13.32) MUTATED 105 12 20
DEL PEAK 48(22Q13.32) WILD-TYPE 121 131 141

Figure S737.  Get High-res Image Gene #99: '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 = 0.012

Table S738.  Gene #99: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 48(22Q13.32) MUTATED 19 1 75 42
DEL PEAK 48(22Q13.32) WILD-TYPE 122 59 48 164

Figure S738.  Get High-res Image Gene #99: 'del_22q13.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_22q13.32' versus 'MIRSEQ_MATURE_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.035

Table S739.  Gene #99: 'del_22q13.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 48(22Q13.32) MUTATED 69 28 22
DEL PEAK 48(22Q13.32) WILD-TYPE 103 68 108

Figure S739.  Get High-res Image Gene #99: 'del_22q13.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_22q13.32' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.012

Table S740.  Gene #99: 'del_22q13.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 48(22Q13.32) MUTATED 64 19 36
DEL PEAK 48(22Q13.32) WILD-TYPE 80 96 103

Figure S740.  Get High-res Image Gene #99: 'del_22q13.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_xp21.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S741.  Gene #100: 'del_xp21.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 169 305 19 9 37
DEL PEAK 49(XP21.1) MUTATED 78 2 3 2 3
DEL PEAK 49(XP21.1) WILD-TYPE 91 303 16 7 34

Figure S741.  Get High-res Image Gene #100: '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 = 0.012

Table S742.  Gene #100: 'del_xp21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 165 89 171
DEL PEAK 49(XP21.1) MUTATED 54 12 9
DEL PEAK 49(XP21.1) WILD-TYPE 111 77 162

Figure S742.  Get High-res Image Gene #100: 'del_xp21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_xp21.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S743.  Gene #100: 'del_xp21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 151 230 149
DEL PEAK 49(XP21.1) MUTATED 5 75 6
DEL PEAK 49(XP21.1) WILD-TYPE 146 155 143

Figure S743.  Get High-res Image Gene #100: '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 = 0.012

Table S744.  Gene #100: 'del_xp21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 216 169 145
DEL PEAK 49(XP21.1) MUTATED 17 64 5
DEL PEAK 49(XP21.1) WILD-TYPE 199 105 140

Figure S744.  Get High-res Image Gene #100: '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 = 0.012

Table S745.  Gene #100: 'del_xp21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 226 143 161
DEL PEAK 49(XP21.1) MUTATED 67 9 9
DEL PEAK 49(XP21.1) WILD-TYPE 159 134 152

Figure S745.  Get High-res Image Gene #100: '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 = 0.012

Table S746.  Gene #100: 'del_xp21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 141 60 123 206
DEL PEAK 49(XP21.1) MUTATED 8 2 48 27
DEL PEAK 49(XP21.1) WILD-TYPE 133 58 75 179

Figure S746.  Get High-res Image Gene #100: 'del_xp21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_xp21.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.072

Table S747.  Gene #100: 'del_xp21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 96 130
DEL PEAK 49(XP21.1) MUTATED 47 17 11
DEL PEAK 49(XP21.1) WILD-TYPE 125 79 119

Figure S747.  Get High-res Image Gene #100: 'del_xp21.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_xp21.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.012

Table S748.  Gene #100: 'del_xp21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 144 115 139
DEL PEAK 49(XP21.1) MUTATED 44 6 25
DEL PEAK 49(XP21.1) WILD-TYPE 100 109 114

Figure S748.  Get High-res Image Gene #100: 'del_xp21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

Methods & Data
Input

  • Copy number data file = transformed.cor.cli.txt

  • Molecular subtype file = UCEC-TP.transferedmergedcluster.txt

  • Number of patients = 539

  • Number of significantly focal cnvs = 100

  • 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)
Copyright © 2015 Broad Institute TCGA GDAC as part of the TCGA Research Network. All rights reserved.
Made with Nozzle