Correlation between copy number variation genes (focal events) and molecular subtypes
Breast Invasive Carcinoma (Primary solid tumor)
15 July 2014  |  analyses__2014_07_15
Maintainer Information
Citation Information
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/C1XG9PV5
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 69 focal events and 12 molecular subtypes across 1044 patients, 671 significant findings detected with P value < 0.05 and Q value < 0.25.

  • amp_1p22.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • amp_1q44 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • amp_3p25.1 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_3q26.32 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_4q13.3 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_5p15.33 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_6p23 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_6q21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_8p11.23 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

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

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

  • amp_10p15.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_10q22.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_11p13 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_11q13.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • amp_12p13.33 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_12q15 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • amp_14q21.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_15q26.3 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_17q12 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • amp_17q23.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

  • amp_19q13.42 cnv correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • amp_20q13.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_1p36.13 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • del_1p21.2 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • del_2p25.1 cnv correlated to 'CN_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

  • del_3p21.31 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_4q35.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_5q11.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_5q21.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_6p25.3 cnv correlated to 'CN_CNMF',  'MRNASEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_6q15 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_6q27 cnv correlated to 'CN_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • del_7p22.3 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_7q36.1 cnv correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_8p11.21 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_9p21.3 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_9q21.11 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',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_10q26.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_11q13.1 cnv correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • del_11q23.2 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_12p13.2 cnv correlated to 'CN_CNMF',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

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

  • del_12q24.31 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_14q24.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_15q13.1 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_16q24.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_17p12 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • del_18q23 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_19p13.3 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_19q13.32 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_20p13 cnv correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_21q11.2 cnv correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • del_22q11.1 cnv correlated to 'CN_CNMF'.

  • del_22q13.32 cnv correlated to 'CN_CNMF'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 69 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, 671 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 1p22 3 244 (23%) 800 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00036
(0.0691)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 3q26 32 331 (32%) 713 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
2e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 6p23 288 (28%) 756 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
4e-05
(0.00972)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 6q21 198 (19%) 846 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 8q24 21 663 (64%) 381 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 10p15 1 294 (28%) 750 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 12p13 33 277 (27%) 767 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 13q34 176 (17%) 868 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 19q12 273 (26%) 771 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 20q13 2 535 (51%) 509 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0006
(0.109)
0.00027
(0.0535)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 2q37 3 310 (30%) 734 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 3p21 31 337 (32%) 707 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 4p16 3 330 (32%) 714 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 4q35 2 337 (32%) 707 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 5q11 2 272 (26%) 772 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 5q21 3 264 (25%) 780 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 9q34 2 293 (28%) 751 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 10q23 31 313 (30%) 731 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 10q26 3 311 (30%) 733 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 11p15 5 302 (29%) 742 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 12q23 1 199 (19%) 845 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 12q24 31 205 (20%) 839 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 14q24 1 341 (33%) 703 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 15q13 1 364 (35%) 680 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
7e-05
(0.016)
4e-05
(0.00972)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 16q24 3 672 (64%) 372 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 17p12 629 (60%) 415 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00071
(0.126)
1e-05
(0.00828)
del 17q21 31 362 (35%) 682 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 19p13 3 350 (34%) 694 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 19q13 32 206 (20%) 838 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00054
(0.0994)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 20p13 156 (15%) 888 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00024
(0.0487)
0.00085
(0.146)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 17q23 1 417 (40%) 627 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.358
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
7e-05
(0.016)
1e-05
(0.00828)
amp 19p13 12 221 (21%) 823 8e-05
(0.0179)
0.00026
(0.052)
1e-05
(0.00828)
5e-05
(0.0117)
0.00089
(0.152)
0.00178
(0.273)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
5e-05
(0.0117)
3e-05
(0.00828)
del 8p23 2 542 (52%) 502 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00877
(0.947)
0.00074
(0.13)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 9p23 319 (31%) 725 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0107
(1.00)
0.00082
(0.142)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00012
(0.0253)
1e-05
(0.00828)
del 9q21 11 289 (28%) 755 0.00115
(0.193)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00749
(0.846)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 13q14 2 485 (46%) 559 2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.265
(1.00)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 3p25 1 197 (19%) 847 0.00077
(0.135)
5e-05
(0.0117)
1e-05
(0.00828)
0.00012
(0.0253)
0.241
(1.00)
0.379
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0001
(0.0215)
2e-05
(0.00828)
amp 4q13 3 159 (15%) 885 1e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0463
(1.00)
0.0377
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
6e-05
(0.0137)
1e-05
(0.00828)
amp 11q13 3 386 (37%) 658 0.00024
(0.0487)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.983
(1.00)
0.00062
(0.112)
1e-05
(0.00828)
1e-05
(0.00828)
0.00054
(0.0994)
2e-05
(0.00828)
0.0105
(1.00)
0.00028
(0.0549)
amp 15q26 3 187 (18%) 857 1e-05
(0.00828)
0.00015
(0.0312)
1e-05
(0.00828)
0.00115
(0.193)
0.0022
(0.328)
0.00783
(0.877)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00015
(0.0312)
1e-05
(0.00828)
amp 17q12 320 (31%) 724 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0933
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00118
(0.196)
1e-05
(0.00828)
0.00411
(0.53)
1e-05
(0.00828)
del 7p22 3 134 (13%) 910 2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00225
(0.333)
0.00451
(0.55)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
del 8p11 21 199 (19%) 845 0.0001
(0.0215)
0.00026
(0.052)
1e-05
(0.00828)
0.0119
(1.00)
0.0301
(1.00)
0.00017
(0.035)
1e-05
(0.00828)
1e-05
(0.00828)
3e-05
(0.00828)
1e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
del 9p21 3 357 (34%) 687 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00496
(0.59)
0.00419
(0.536)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
del 18q23 343 (33%) 701 9e-05
(0.0198)
5e-05
(0.0117)
1e-05
(0.00828)
1e-05
(0.00828)
0.00385
(0.52)
0.0313
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 5p15 33 382 (37%) 662 0.00884
(0.947)
0.00078
(0.136)
1e-05
(0.00828)
1e-05
(0.00828)
0.0472
(1.00)
0.477
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 10q22 3 146 (14%) 898 2e-05
(0.00828)
9e-05
(0.0198)
1e-05
(0.00828)
0.00275
(0.388)
0.00473
(0.572)
0.487
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.00031
(0.0601)
1e-05
(0.00828)
0.00045
(0.0837)
4e-05
(0.00972)
amp 11q14 1 258 (25%) 786 0.00555
(0.644)
9e-05
(0.0198)
1e-05
(0.00828)
9e-05
(0.0198)
0.0834
(1.00)
0.257
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
8e-05
(0.0179)
2e-05
(0.00828)
4e-05
(0.00972)
amp 12q15 269 (26%) 775 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00024
(0.0487)
0.29
(1.00)
0.00479
(0.575)
1e-05
(0.00828)
1e-05
(0.00828)
4e-05
(0.00972)
1e-05
(0.00828)
0.00815
(0.9)
1e-05
(0.00828)
amp 14q21 1 213 (20%) 831 2e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
4e-05
(0.00972)
0.0691
(1.00)
0.0026
(0.372)
1e-05
(0.00828)
1e-05
(0.00828)
7e-05
(0.016)
1e-05
(0.00828)
0.151
(1.00)
1e-05
(0.00828)
del 11q23 2 534 (51%) 510 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.92
(1.00)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0906
(1.00)
0.0007
(0.125)
0.244
(1.00)
0.00126
(0.205)
amp 1q21 3 757 (73%) 287 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0469
(1.00)
0.0136
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.00211
(0.316)
1e-05
(0.00828)
0.0266
(1.00)
0.00125
(0.205)
amp 11p13 217 (21%) 827 0.164
(1.00)
0.00093
(0.158)
1e-05
(0.00828)
0.00394
(0.527)
0.0625
(1.00)
0.0494
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 19q13 42 268 (26%) 776 0.00044
(0.0823)
0.00255
(0.368)
1e-05
(0.00828)
0.00095
(0.161)
0.00122
(0.201)
0.247
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.00011
(0.0234)
5e-05
(0.0117)
0.121
(1.00)
0.0269
(1.00)
del 1p36 13 437 (42%) 607 7e-05
(0.016)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00338
(0.463)
0.00398
(0.527)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.0102
(1.00)
0.00177
(0.273)
del 1p21 2 345 (33%) 699 0.00425
(0.54)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00031
(0.0601)
0.00161
(0.253)
1e-05
(0.00828)
1e-05
(0.00828)
0.00149
(0.237)
1e-05
(0.00828)
0.388
(1.00)
0.0019
(0.289)
del 6q15 341 (33%) 703 1e-05
(0.00828)
0.00036
(0.0691)
1e-05
(0.00828)
1e-05
(0.00828)
0.454
(1.00)
0.014
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.00195
(0.294)
1e-05
(0.00828)
0.00287
(0.399)
1e-05
(0.00828)
del 7q36 1 195 (19%) 849 0.0025
(0.367)
1e-05
(0.00828)
1e-05
(0.00828)
0.00264
(0.375)
0.31
(1.00)
0.0309
(1.00)
1e-05
(0.00828)
2e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
amp 8p11 23 399 (38%) 645 1e-05
(0.00828)
1e-05
(0.00828)
1e-05
(0.00828)
0.00014
(0.0293)
0.0543
(1.00)
4e-05
(0.00972)
1e-05
(0.00828)
1e-05
(0.00828)
0.412
(1.00)
0.129
(1.00)
0.46
(1.00)
0.0507
(1.00)
amp 8p11 21 411 (39%) 633 0.0442
(1.00)
0.00425
(0.54)
1e-05
(0.00828)
8e-05
(0.0179)
0.901
(1.00)
0.0768
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.00981
(1.00)
0.0007
(0.125)
0.00145
(0.232)
3e-05
(0.00828)
del 21q11 2 209 (20%) 835 0.00019
(0.0389)
0.00396
(0.527)
1e-05
(0.00828)
0.00027
(0.0535)
0.0614
(1.00)
0.00849
(0.925)
0.00011
(0.0234)
1e-05
(0.00828)
0.00393
(0.527)
4e-05
(0.00972)
0.159
(1.00)
0.00066
(0.119)
amp 1q44 763 (73%) 281 2e-05
(0.00828)
0.00125
(0.205)
1e-05
(0.00828)
0.00436
(0.54)
0.853
(1.00)
0.364
(1.00)
1e-05
(0.00828)
8e-05
(0.0179)
0.82
(1.00)
0.0296
(1.00)
0.214
(1.00)
0.00695
(0.795)
del 2p25 1 198 (19%) 846 0.419
(1.00)
0.382
(1.00)
1e-05
(0.00828)
0.00427
(0.54)
0.184
(1.00)
0.225
(1.00)
0.0204
(1.00)
1e-05
(0.00828)
0.00019
(0.0389)
9e-05
(0.0198)
0.00691
(0.795)
0.00161
(0.253)
del 11q13 1 233 (22%) 811 0.00406
(0.528)
0.00254
(0.368)
1e-05
(0.00828)
5e-05
(0.0117)
0.399
(1.00)
0.0256
(1.00)
1e-05
(0.00828)
1e-05
(0.00828)
0.286
(1.00)
0.00425
(0.54)
0.286
(1.00)
0.0115
(1.00)
del 6p25 3 202 (19%) 842 0.376
(1.00)
0.74
(1.00)
1e-05
(0.00828)
0.00364
(0.495)
0.391
(1.00)
0.0953
(1.00)
0.00144
(0.232)
0.0473
(1.00)
0.199
(1.00)
0.0345
(1.00)
0.0309
(1.00)
0.00039
(0.0741)
del 6q27 362 (35%) 682 0.0219
(1.00)
0.011
(1.00)
1e-05
(0.00828)
0.15
(1.00)
0.0587
(1.00)
0.0644
(1.00)
0.00154
(0.243)
0.00028
(0.0549)
0.472
(1.00)
0.164
(1.00)
0.665
(1.00)
0.683
(1.00)
del 12p13 2 177 (17%) 867 0.035
(1.00)
0.107
(1.00)
0.00046
(0.0851)
0.0336
(1.00)
0.32
(1.00)
0.236
(1.00)
0.00511
(0.603)
0.00167
(0.259)
0.0004
(0.0756)
0.00041
(0.0771)
0.0028
(0.392)
0.00325
(0.448)
del 22q11 1 453 (43%) 591 0.372
(1.00)
0.435
(1.00)
1e-05
(0.00828)
0.023
(1.00)
0.342
(1.00)
0.104
(1.00)
0.42
(1.00)
0.223
(1.00)
0.0908
(1.00)
0.00547
(0.64)
0.402
(1.00)
0.09
(1.00)
del 22q13 32 481 (46%) 563 0.257
(1.00)
0.0106
(1.00)
1e-05
(0.00828)
0.0816
(1.00)
0.173
(1.00)
0.0171
(1.00)
0.0187
(1.00)
0.00252
(0.368)
0.0707
(1.00)
0.00811
(0.9)
0.495
(1.00)
0.106
(1.00)
'amp_1p22.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S1.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 1(1P22.3) MUTATED 4 3 14 51 24 15 2 2
AMP PEAK 1(1P22.3) WILD-TYPE 17 33 105 45 85 57 18 38

Figure S1.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1p22.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S2.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 1(1P22.3) MUTATED 14 19 24 47 11
AMP PEAK 1(1P22.3) WILD-TYPE 87 133 90 41 47

Figure S2.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S3.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 1(1P22.3) MUTATED 52 36 31 113 12
AMP PEAK 1(1P22.3) WILD-TYPE 347 204 68 151 30

Figure S3.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1p22.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S4.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 1(1P22.3) MUTATED 72 30 33 11 23
AMP PEAK 1(1P22.3) WILD-TYPE 60 167 144 77 105

Figure S4.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_1p22.3' versus 'RPPA_CNMF'

P value = 0.00036 (Fisher's exact test), Q value = 0.069

Table S5.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 1(1P22.3) MUTATED 52 27 17
AMP PEAK 1(1P22.3) WILD-TYPE 97 105 100

Figure S5.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_1p22.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S6.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 1(1P22.3) MUTATED 15 14 45 17 5
AMP PEAK 1(1P22.3) WILD-TYPE 49 92 45 90 26

Figure S6.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_1p22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S7.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 1(1P22.3) MUTATED 99 14 53 36 33 5 2
AMP PEAK 1(1P22.3) WILD-TYPE 91 129 181 125 211 47 14

Figure S7.  Get High-res Image Gene #1: '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 = 0.0083

Table S8.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 1(1P22.3) MUTATED 97 29 35 38 28 15
AMP PEAK 1(1P22.3) WILD-TYPE 81 214 162 142 156 43

Figure S8.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1p22.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S9.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 1(1P22.3) MUTATED 50 66 125
AMP PEAK 1(1P22.3) WILD-TYPE 256 356 172

Figure S9.  Get High-res Image Gene #1: '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 = 0.0083

Table S10.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 1(1P22.3) MUTATED 27 27 72 78 37
AMP PEAK 1(1P22.3) WILD-TYPE 147 159 333 56 89

Figure S10.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S11.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 1(1P22.3) MUTATED 35 42 92
AMP PEAK 1(1P22.3) WILD-TYPE 214 214 117

Figure S11.  Get High-res Image Gene #1: '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 = 0.0083

Table S12.  Gene #1: 'amp_1p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 1(1P22.3) MUTATED 70 6 39 21 17 16
AMP PEAK 1(1P22.3) WILD-TYPE 57 61 154 114 108 51

Figure S12.  Get High-res Image Gene #1: 'amp_1p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q21.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S13.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 2(1Q21.3) MUTATED 16 19 75 88 88 54 10 29
AMP PEAK 2(1Q21.3) WILD-TYPE 5 17 44 8 21 18 10 11

Figure S13.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1q21.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S14.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 2(1Q21.3) MUTATED 62 102 89 81 45
AMP PEAK 2(1Q21.3) WILD-TYPE 39 50 25 7 13

Figure S14.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1q21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S15.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 2(1Q21.3) MUTATED 245 177 97 207 31
AMP PEAK 2(1Q21.3) WILD-TYPE 154 63 2 57 11

Figure S15.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q21.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S16.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 2(1Q21.3) MUTATED 112 144 130 65 70
AMP PEAK 2(1Q21.3) WILD-TYPE 20 53 47 23 58

Figure S16.  Get High-res Image Gene #2: '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 = 0.0083

Table S17.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 2(1Q21.3) MUTATED 163 84 196 113 152 35 10
AMP PEAK 2(1Q21.3) WILD-TYPE 27 59 38 48 92 17 6

Figure S17.  Get High-res Image Gene #2: '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 = 0.0083

Table S18.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 2(1Q21.3) MUTATED 155 158 149 139 119 33
AMP PEAK 2(1Q21.3) WILD-TYPE 23 85 48 41 65 25

Figure S18.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S19.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 2(1Q21.3) MUTATED 117 112 301 120 90
AMP PEAK 2(1Q21.3) WILD-TYPE 57 74 104 14 36

Figure S19.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_1q21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00125 (Fisher's exact test), Q value = 0.2

Table S20.  Gene #2: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 2(1Q21.3) MUTATED 105 41 142 82 90 44
AMP PEAK 2(1Q21.3) WILD-TYPE 22 26 51 53 35 23

Figure S20.  Get High-res Image Gene #2: 'amp_1q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_1q44' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S21.  Gene #3: 'amp_1q44' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 3(1Q44) MUTATED 16 20 69 78 91 57 11 32
AMP PEAK 3(1Q44) WILD-TYPE 5 16 50 18 18 15 9 8

Figure S21.  Get High-res Image Gene #3: 'amp_1q44' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_1q44' versus 'MRNA_CHIERARCHICAL'

P value = 0.00125 (Fisher's exact test), Q value = 0.2

Table S22.  Gene #3: 'amp_1q44' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 3(1Q44) MUTATED 59 107 92 72 44
AMP PEAK 3(1Q44) WILD-TYPE 42 45 22 16 14

Figure S22.  Get High-res Image Gene #3: 'amp_1q44' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_1q44' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S23.  Gene #3: 'amp_1q44' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 3(1Q44) MUTATED 256 180 99 200 28
AMP PEAK 3(1Q44) WILD-TYPE 143 60 0 64 14

Figure S23.  Get High-res Image Gene #3: 'amp_1q44' versus Molecular Subtype #3: 'CN_CNMF'

'amp_1q44' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S24.  Gene #3: 'amp_1q44' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 3(1Q44) MUTATED 146 95 202 118 145 41 12
AMP PEAK 3(1Q44) WILD-TYPE 44 48 32 43 99 11 4

Figure S24.  Get High-res Image Gene #3: 'amp_1q44' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_1q44' versus 'MRNASEQ_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.018

Table S25.  Gene #3: 'amp_1q44' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 3(1Q44) MUTATED 139 175 152 145 113 35
AMP PEAK 3(1Q44) WILD-TYPE 39 68 45 35 71 23

Figure S25.  Get High-res Image Gene #3: 'amp_1q44' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3p25.1' versus 'MRNA_CNMF'

P value = 0.00077 (Fisher's exact test), Q value = 0.13

Table S26.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 4(3P25.1) MUTATED 6 7 34 20 18 25 7 1
AMP PEAK 4(3P25.1) WILD-TYPE 15 29 85 76 91 47 13 39

Figure S26.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_3p25.1' versus 'MRNA_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.012

Table S27.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 4(3P25.1) MUTATED 27 18 42 18 13
AMP PEAK 4(3P25.1) WILD-TYPE 74 134 72 70 45

Figure S27.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_3p25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S28.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 4(3P25.1) MUTATED 20 71 24 72 10
AMP PEAK 4(3P25.1) WILD-TYPE 379 169 75 192 32

Figure S28.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3p25.1' versus 'METHLYATION_CNMF'

P value = 0.00012 (Fisher's exact test), Q value = 0.025

Table S29.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 4(3P25.1) MUTATED 34 19 38 10 14
AMP PEAK 4(3P25.1) WILD-TYPE 98 178 139 78 114

Figure S29.  Get High-res Image Gene #4: '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 = 0.0083

Table S30.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 4(3P25.1) MUTATED 46 9 31 42 61 2 5
AMP PEAK 4(3P25.1) WILD-TYPE 144 134 203 119 183 50 11

Figure S30.  Get High-res Image Gene #4: '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 = 0.0083

Table S31.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 4(3P25.1) MUTATED 43 19 22 58 41 13
AMP PEAK 4(3P25.1) WILD-TYPE 135 224 175 122 143 45

Figure S31.  Get High-res Image Gene #4: '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 = 0.0083

Table S32.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 4(3P25.1) MUTATED 32 82 75
AMP PEAK 4(3P25.1) WILD-TYPE 274 340 222

Figure S32.  Get High-res Image Gene #4: '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 = 0.0083

Table S33.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 4(3P25.1) MUTATED 10 22 90 33 34
AMP PEAK 4(3P25.1) WILD-TYPE 164 164 315 101 92

Figure S33.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3p25.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-04 (Fisher's exact test), Q value = 0.021

Table S34.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 4(3P25.1) MUTATED 45 28 55
AMP PEAK 4(3P25.1) WILD-TYPE 204 228 154

Figure S34.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3p25.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S35.  Gene #4: 'amp_3p25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 4(3P25.1) MUTATED 32 4 44 22 9 17
AMP PEAK 4(3P25.1) WILD-TYPE 95 63 149 113 116 50

Figure S35.  Get High-res Image Gene #4: 'amp_3p25.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_3q26.32' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S36.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 5(3Q26.32) MUTATED 5 11 41 58 19 34 9 4
AMP PEAK 5(3Q26.32) WILD-TYPE 16 25 78 38 90 38 11 36

Figure S36.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_3q26.32' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S37.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 5(3Q26.32) MUTATED 29 29 57 53 13
AMP PEAK 5(3Q26.32) WILD-TYPE 72 123 57 35 45

Figure S37.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_3q26.32' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S38.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 5(3Q26.32) MUTATED 36 95 29 161 10
AMP PEAK 5(3Q26.32) WILD-TYPE 363 145 70 103 32

Figure S38.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #3: 'CN_CNMF'

'amp_3q26.32' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S39.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 5(3Q26.32) MUTATED 83 36 51 18 22
AMP PEAK 5(3Q26.32) WILD-TYPE 49 161 126 70 106

Figure S39.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_3q26.32' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S40.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 5(3Q26.32) MUTATED 76 36 30
AMP PEAK 5(3Q26.32) WILD-TYPE 73 96 87

Figure S40.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_3q26.32' versus 'RPPA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S41.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 5(3Q26.32) MUTATED 22 26 54 30 10
AMP PEAK 5(3Q26.32) WILD-TYPE 42 80 36 77 21

Figure S41.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_3q26.32' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S42.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 5(3Q26.32) MUTATED 119 20 45 64 68 4 8
AMP PEAK 5(3Q26.32) WILD-TYPE 71 123 189 97 176 48 8

Figure S42.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_3q26.32' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S43.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 5(3Q26.32) MUTATED 112 30 35 74 52 25
AMP PEAK 5(3Q26.32) WILD-TYPE 66 213 162 106 132 33

Figure S43.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_3q26.32' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S44.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 5(3Q26.32) MUTATED 46 115 161
AMP PEAK 5(3Q26.32) WILD-TYPE 260 307 136

Figure S44.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_3q26.32' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S45.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 5(3Q26.32) MUTATED 17 41 120 83 61
AMP PEAK 5(3Q26.32) WILD-TYPE 157 145 285 51 65

Figure S45.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_3q26.32' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S46.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 5(3Q26.32) MUTATED 57 44 108
AMP PEAK 5(3Q26.32) WILD-TYPE 192 212 101

Figure S46.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_3q26.32' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S47.  Gene #5: 'amp_3q26.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 5(3Q26.32) MUTATED 75 8 55 32 13 26
AMP PEAK 5(3Q26.32) WILD-TYPE 52 59 138 103 112 41

Figure S47.  Get High-res Image Gene #5: 'amp_3q26.32' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_4q13.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S48.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 6(4Q13.3) MUTATED 4 3 32 19 3 18 4 3
AMP PEAK 6(4Q13.3) WILD-TYPE 17 33 87 77 106 54 16 37

Figure S48.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_4q13.3' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S49.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 6(4Q13.3) MUTATED 22 12 31 19 2
AMP PEAK 6(4Q13.3) WILD-TYPE 79 140 83 69 56

Figure S49.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_4q13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S50.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 6(4Q13.3) MUTATED 19 71 2 60 7
AMP PEAK 6(4Q13.3) WILD-TYPE 380 169 97 204 35

Figure S50.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_4q13.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S51.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 6(4Q13.3) MUTATED 32 15 37 5 11
AMP PEAK 6(4Q13.3) WILD-TYPE 100 182 140 83 117

Figure S51.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_4q13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S52.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 6(4Q13.3) MUTATED 40 7 13 35 58 2 4
AMP PEAK 6(4Q13.3) WILD-TYPE 150 136 221 126 186 50 12

Figure S52.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_4q13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S53.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 6(4Q13.3) MUTATED 39 17 8 36 41 18
AMP PEAK 6(4Q13.3) WILD-TYPE 139 226 189 144 143 40

Figure S53.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_4q13.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S54.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 6(4Q13.3) MUTATED 24 64 69
AMP PEAK 6(4Q13.3) WILD-TYPE 282 358 228

Figure S54.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_4q13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S55.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 6(4Q13.3) MUTATED 6 22 63 30 36
AMP PEAK 6(4Q13.3) WILD-TYPE 168 164 342 104 90

Figure S55.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_4q13.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.014

Table S56.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 6(4Q13.3) MUTATED 38 19 47
AMP PEAK 6(4Q13.3) WILD-TYPE 211 237 162

Figure S56.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_4q13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S57.  Gene #6: 'amp_4q13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 6(4Q13.3) MUTATED 29 3 27 21 5 19
AMP PEAK 6(4Q13.3) WILD-TYPE 98 64 166 114 120 48

Figure S57.  Get High-res Image Gene #6: 'amp_4q13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_5p15.33' versus 'MRNA_CHIERARCHICAL'

P value = 0.00078 (Fisher's exact test), Q value = 0.14

Table S58.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 7(5P15.33) MUTATED 34 44 59 40 17
AMP PEAK 7(5P15.33) WILD-TYPE 67 108 55 48 41

Figure S58.  Get High-res Image Gene #7: 'amp_5p15.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_5p15.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S59.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 7(5P15.33) MUTATED 64 116 52 136 14
AMP PEAK 7(5P15.33) WILD-TYPE 335 124 47 128 28

Figure S59.  Get High-res Image Gene #7: '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 = 0.0083

Table S60.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 7(5P15.33) MUTATED 69 55 76 25 30
AMP PEAK 7(5P15.33) WILD-TYPE 63 142 101 63 98

Figure S60.  Get High-res Image Gene #7: '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 = 0.0083

Table S61.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 7(5P15.33) MUTATED 94 35 73 68 89 11 9
AMP PEAK 7(5P15.33) WILD-TYPE 96 108 161 93 155 41 7

Figure S61.  Get High-res Image Gene #7: '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 = 0.0083

Table S62.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 7(5P15.33) MUTATED 88 65 46 84 70 26
AMP PEAK 7(5P15.33) WILD-TYPE 90 178 151 96 114 32

Figure S62.  Get High-res Image Gene #7: 'amp_5p15.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_5p15.33' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S63.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 7(5P15.33) MUTATED 83 153 136
AMP PEAK 7(5P15.33) WILD-TYPE 223 269 161

Figure S63.  Get High-res Image Gene #7: '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 = 0.0083

Table S64.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 7(5P15.33) MUTATED 37 59 152 64 60
AMP PEAK 7(5P15.33) WILD-TYPE 137 127 253 70 66

Figure S64.  Get High-res Image Gene #7: '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 = 0.0083

Table S65.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 7(5P15.33) MUTATED 94 67 96
AMP PEAK 7(5P15.33) WILD-TYPE 155 189 113

Figure S65.  Get High-res Image Gene #7: '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 = 0.0083

Table S66.  Gene #7: 'amp_5p15.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 7(5P15.33) MUTATED 60 15 83 44 26 29
AMP PEAK 7(5P15.33) WILD-TYPE 67 52 110 91 99 38

Figure S66.  Get High-res Image Gene #7: 'amp_5p15.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6p23' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S67.  Gene #8: 'amp_6p23' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 8(6P23) MUTATED 3 7 30 49 18 28 9 6
AMP PEAK 8(6P23) WILD-TYPE 18 29 89 47 91 44 11 34

Figure S67.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_6p23' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S68.  Gene #8: 'amp_6p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 8(6P23) MUTATED 22 28 48 45 7
AMP PEAK 8(6P23) WILD-TYPE 79 124 66 43 51

Figure S68.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_6p23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S69.  Gene #8: 'amp_6p23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 8(6P23) MUTATED 26 80 23 146 13
AMP PEAK 8(6P23) WILD-TYPE 373 160 76 118 29

Figure S69.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #3: 'CN_CNMF'

'amp_6p23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S70.  Gene #8: 'amp_6p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 8(6P23) MUTATED 74 29 59 7 23
AMP PEAK 8(6P23) WILD-TYPE 58 168 118 81 105

Figure S70.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6p23' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S71.  Gene #8: 'amp_6p23' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 8(6P23) MUTATED 68 24 24
AMP PEAK 8(6P23) WILD-TYPE 81 108 93

Figure S71.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_6p23' versus 'RPPA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S72.  Gene #8: 'amp_6p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 8(6P23) MUTATED 14 21 46 27 8
AMP PEAK 8(6P23) WILD-TYPE 50 85 44 80 23

Figure S72.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_6p23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S73.  Gene #8: 'amp_6p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 8(6P23) MUTATED 102 17 33 53 65 8 9
AMP PEAK 8(6P23) WILD-TYPE 88 126 201 108 179 44 7

Figure S73.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_6p23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S74.  Gene #8: 'amp_6p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 8(6P23) MUTATED 93 38 18 78 42 18
AMP PEAK 8(6P23) WILD-TYPE 85 205 179 102 142 40

Figure S74.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6p23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S75.  Gene #8: 'amp_6p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 8(6P23) MUTATED 39 98 139
AMP PEAK 8(6P23) WILD-TYPE 267 324 158

Figure S75.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_6p23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S76.  Gene #8: 'amp_6p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 8(6P23) MUTATED 12 28 111 70 55
AMP PEAK 8(6P23) WILD-TYPE 162 158 294 64 71

Figure S76.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6p23' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S77.  Gene #8: 'amp_6p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 8(6P23) MUTATED 49 37 97
AMP PEAK 8(6P23) WILD-TYPE 200 219 112

Figure S77.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6p23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S78.  Gene #8: 'amp_6p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 8(6P23) MUTATED 62 7 50 29 12 23
AMP PEAK 8(6P23) WILD-TYPE 65 60 143 106 113 44

Figure S78.  Get High-res Image Gene #8: 'amp_6p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_6q21' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S79.  Gene #9: 'amp_6q21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 9(6Q21) MUTATED 4 1 11 42 11 24 9 2
AMP PEAK 9(6Q21) WILD-TYPE 17 35 108 54 98 48 11 38

Figure S79.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_6q21' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S80.  Gene #9: 'amp_6q21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 9(6Q21) MUTATED 10 14 39 37 4
AMP PEAK 9(6Q21) WILD-TYPE 91 138 75 51 54

Figure S80.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_6q21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S81.  Gene #9: 'amp_6q21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 9(6Q21) MUTATED 23 22 17 131 5
AMP PEAK 9(6Q21) WILD-TYPE 376 218 82 133 37

Figure S81.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_6q21' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S82.  Gene #9: 'amp_6q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 9(6Q21) MUTATED 61 9 31 6 20
AMP PEAK 9(6Q21) WILD-TYPE 71 188 146 82 108

Figure S82.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_6q21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S83.  Gene #9: 'amp_6q21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 9(6Q21) MUTATED 55 11 16
AMP PEAK 9(6Q21) WILD-TYPE 94 121 101

Figure S83.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_6q21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S84.  Gene #9: 'amp_6q21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 9(6Q21) MUTATED 6 15 38 16 7
AMP PEAK 9(6Q21) WILD-TYPE 58 91 52 91 24

Figure S84.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_6q21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S85.  Gene #9: 'amp_6q21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 9(6Q21) MUTATED 88 9 20 44 26 4 6
AMP PEAK 9(6Q21) WILD-TYPE 102 134 214 117 218 48 10

Figure S85.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_6q21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S86.  Gene #9: 'amp_6q21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 9(6Q21) MUTATED 81 13 10 53 21 19
AMP PEAK 9(6Q21) WILD-TYPE 97 230 187 127 163 39

Figure S86.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_6q21' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S87.  Gene #9: 'amp_6q21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 9(6Q21) MUTATED 19 50 119
AMP PEAK 9(6Q21) WILD-TYPE 287 372 178

Figure S87.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_6q21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S88.  Gene #9: 'amp_6q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 9(6Q21) MUTATED 8 7 63 58 52
AMP PEAK 9(6Q21) WILD-TYPE 166 179 342 76 74

Figure S88.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_6q21' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S89.  Gene #9: 'amp_6q21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 9(6Q21) MUTATED 29 16 86
AMP PEAK 9(6Q21) WILD-TYPE 220 240 123

Figure S89.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_6q21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S90.  Gene #9: 'amp_6q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 9(6Q21) MUTATED 58 2 30 10 6 25
AMP PEAK 9(6Q21) WILD-TYPE 69 65 163 125 119 42

Figure S90.  Get High-res Image Gene #9: 'amp_6q21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8p11.23' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S91.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 10(8P11.23) MUTATED 11 18 74 33 36 23 5 9
AMP PEAK 10(8P11.23) WILD-TYPE 10 18 45 63 73 49 15 31

Figure S91.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_8p11.23' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S92.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 10(8P11.23) MUTATED 64 62 41 30 12
AMP PEAK 10(8P11.23) WILD-TYPE 37 90 73 58 46

Figure S92.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_8p11.23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S93.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 10(8P11.23) MUTATED 110 129 41 78 41
AMP PEAK 10(8P11.23) WILD-TYPE 289 111 58 186 1

Figure S93.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.23' versus 'METHLYATION_CNMF'

P value = 0.00014 (Fisher's exact test), Q value = 0.029

Table S94.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 10(8P11.23) MUTATED 47 66 92 32 35
AMP PEAK 10(8P11.23) WILD-TYPE 85 131 85 56 93

Figure S94.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8p11.23' versus 'RPPA_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S95.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 10(8P11.23) MUTATED 28 47 32 54 2
AMP PEAK 10(8P11.23) WILD-TYPE 36 59 58 53 29

Figure S95.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8p11.23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S96.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 10(8P11.23) MUTATED 62 51 71 44 149 13 6
AMP PEAK 10(8P11.23) WILD-TYPE 128 92 163 117 95 39 10

Figure S96.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8p11.23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S97.  Gene #10: 'amp_8p11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 10(8P11.23) MUTATED 57 81 51 77 116 14
AMP PEAK 10(8P11.23) WILD-TYPE 121 162 146 103 68 44

Figure S97.  Get High-res Image Gene #10: 'amp_8p11.23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S98.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 11(8P11.21) MUTATED 103 115 44 107 42
AMP PEAK 11(8P11.21) WILD-TYPE 296 125 55 157 0

Figure S98.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

'amp_8p11.21' versus 'METHLYATION_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.018

Table S99.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 11(8P11.21) MUTATED 71 65 81 28 38
AMP PEAK 11(8P11.21) WILD-TYPE 61 132 96 60 90

Figure S99.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8p11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S100.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 11(8P11.21) MUTATED 97 42 76 46 130 11 6
AMP PEAK 11(8P11.21) WILD-TYPE 93 101 158 115 114 41 10

Figure S100.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_8p11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S101.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 11(8P11.21) MUTATED 91 70 55 74 102 16
AMP PEAK 11(8P11.21) WILD-TYPE 87 173 142 106 82 42

Figure S101.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7e-04 (Fisher's exact test), Q value = 0.13

Table S102.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 11(8P11.21) MUTATED 51 75 159 72 45
AMP PEAK 11(8P11.21) WILD-TYPE 123 111 246 62 81

Figure S102.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_8p11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00145 (Fisher's exact test), Q value = 0.23

Table S103.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 11(8P11.21) MUTATED 82 84 99
AMP PEAK 11(8P11.21) WILD-TYPE 167 172 110

Figure S103.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_8p11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.0083

Table S104.  Gene #11: 'amp_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 11(8P11.21) MUTATED 64 15 66 63 31 26
AMP PEAK 11(8P11.21) WILD-TYPE 63 52 127 72 94 41

Figure S104.  Get High-res Image Gene #11: 'amp_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S105.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 12(8Q24.21) MUTATED 17 20 96 83 46 56 17 15
AMP PEAK 12(8Q24.21) WILD-TYPE 4 16 23 13 63 16 3 25

Figure S105.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_8q24.21' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S106.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 12(8Q24.21) MUTATED 84 83 92 75 16
AMP PEAK 12(8Q24.21) WILD-TYPE 17 69 22 13 42

Figure S106.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_8q24.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S107.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 12(8Q24.21) MUTATED 144 191 48 239 41
AMP PEAK 12(8Q24.21) WILD-TYPE 255 49 51 25 1

Figure S107.  Get High-res Image Gene #12: '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 = 0.0083

Table S108.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 12(8Q24.21) MUTATED 120 82 125 39 68
AMP PEAK 12(8Q24.21) WILD-TYPE 12 115 52 49 60

Figure S108.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_8q24.21' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S109.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 12(8Q24.21) MUTATED 126 71 76
AMP PEAK 12(8Q24.21) WILD-TYPE 23 61 41

Figure S109.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_8q24.21' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S110.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 12(8Q24.21) MUTATED 34 57 78 79 25
AMP PEAK 12(8Q24.21) WILD-TYPE 30 49 12 28 6

Figure S110.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_8q24.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S111.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 12(8Q24.21) MUTATED 169 66 94 114 184 19 13
AMP PEAK 12(8Q24.21) WILD-TYPE 21 77 140 47 60 33 3

Figure S111.  Get High-res Image Gene #12: '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 = 0.0083

Table S112.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 12(8Q24.21) MUTATED 159 108 72 139 138 43
AMP PEAK 12(8Q24.21) WILD-TYPE 19 135 125 41 46 15

Figure S112.  Get High-res Image Gene #12: '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 = 0.0083

Table S113.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 12(8Q24.21) MUTATED 134 255 259
AMP PEAK 12(8Q24.21) WILD-TYPE 172 167 38

Figure S113.  Get High-res Image Gene #12: '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 = 0.0083

Table S114.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 12(8Q24.21) MUTATED 59 95 268 123 103
AMP PEAK 12(8Q24.21) WILD-TYPE 115 91 137 11 23

Figure S114.  Get High-res Image Gene #12: '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 = 0.0083

Table S115.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 12(8Q24.21) MUTATED 139 109 184
AMP PEAK 12(8Q24.21) WILD-TYPE 110 147 25

Figure S115.  Get High-res Image Gene #12: '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 = 0.0083

Table S116.  Gene #12: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 12(8Q24.21) MUTATED 113 23 122 79 39 56
AMP PEAK 12(8Q24.21) WILD-TYPE 14 44 71 56 86 11

Figure S116.  Get High-res Image Gene #12: 'amp_8q24.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_10p15.1' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S117.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 13(10P15.1) MUTATED 6 4 26 67 12 33 6 7
AMP PEAK 13(10P15.1) WILD-TYPE 15 32 93 29 97 39 14 33

Figure S117.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_10p15.1' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S118.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 13(10P15.1) MUTATED 16 22 53 63 7
AMP PEAK 13(10P15.1) WILD-TYPE 85 130 61 25 51

Figure S118.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_10p15.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S119.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 13(10P15.1) MUTATED 33 67 19 166 9
AMP PEAK 13(10P15.1) WILD-TYPE 366 173 80 98 33

Figure S119.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_10p15.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S120.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 13(10P15.1) MUTATED 88 16 45 9 31
AMP PEAK 13(10P15.1) WILD-TYPE 44 181 132 79 97

Figure S120.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_10p15.1' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S121.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 13(10P15.1) MUTATED 78 22 29
AMP PEAK 13(10P15.1) WILD-TYPE 71 110 88

Figure S121.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_10p15.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S122.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 13(10P15.1) MUTATED 8 24 61 27 9
AMP PEAK 13(10P15.1) WILD-TYPE 56 82 29 80 22

Figure S122.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_10p15.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S123.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 13(10P15.1) MUTATED 122 17 26 58 56 8 7
AMP PEAK 13(10P15.1) WILD-TYPE 68 126 208 103 188 44 9

Figure S123.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_10p15.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S124.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 13(10P15.1) MUTATED 121 29 14 64 41 25
AMP PEAK 13(10P15.1) WILD-TYPE 57 214 183 116 143 33

Figure S124.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_10p15.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S125.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 13(10P15.1) MUTATED 42 80 164
AMP PEAK 13(10P15.1) WILD-TYPE 264 342 133

Figure S125.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_10p15.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S126.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 13(10P15.1) MUTATED 11 20 101 90 64
AMP PEAK 13(10P15.1) WILD-TYPE 163 166 304 44 62

Figure S126.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_10p15.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S127.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 13(10P15.1) MUTATED 45 34 111
AMP PEAK 13(10P15.1) WILD-TYPE 204 222 98

Figure S127.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_10p15.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S128.  Gene #13: 'amp_10p15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 13(10P15.1) MUTATED 81 7 39 24 10 29
AMP PEAK 13(10P15.1) WILD-TYPE 46 60 154 111 115 38

Figure S128.  Get High-res Image Gene #13: 'amp_10p15.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_10q22.3' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S129.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 14(10Q22.3) MUTATED 6 3 16 18 9 23 8 3
AMP PEAK 14(10Q22.3) WILD-TYPE 15 33 103 78 100 49 12 37

Figure S129.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_10q22.3' versus 'MRNA_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.02

Table S130.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 14(10Q22.3) MUTATED 11 17 36 17 5
AMP PEAK 14(10Q22.3) WILD-TYPE 90 135 78 71 53

Figure S130.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_10q22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S131.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 14(10Q22.3) MUTATED 21 39 15 65 6
AMP PEAK 14(10Q22.3) WILD-TYPE 378 201 84 199 36

Figure S131.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_10q22.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S132.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 14(10Q22.3) MUTATED 33 10 20 41 30 4 8
AMP PEAK 14(10Q22.3) WILD-TYPE 157 133 214 120 214 48 8

Figure S132.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_10q22.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S133.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 14(10Q22.3) MUTATED 30 15 13 46 26 16
AMP PEAK 14(10Q22.3) WILD-TYPE 148 228 184 134 158 42

Figure S133.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_10q22.3' versus 'MIRSEQ_CNMF'

P value = 0.00031 (Fisher's exact test), Q value = 0.06

Table S134.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 14(10Q22.3) MUTATED 26 57 59
AMP PEAK 14(10Q22.3) WILD-TYPE 280 365 238

Figure S134.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_10q22.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S135.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 14(10Q22.3) MUTATED 9 12 70 23 28
AMP PEAK 14(10Q22.3) WILD-TYPE 165 174 335 111 98

Figure S135.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_10q22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00045 (Fisher's exact test), Q value = 0.084

Table S136.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 14(10Q22.3) MUTATED 36 18 40
AMP PEAK 14(10Q22.3) WILD-TYPE 213 238 169

Figure S136.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_10q22.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S137.  Gene #14: 'amp_10q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 14(10Q22.3) MUTATED 19 4 34 12 6 19
AMP PEAK 14(10Q22.3) WILD-TYPE 108 63 159 123 119 48

Figure S137.  Get High-res Image Gene #14: 'amp_10q22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11p13' versus 'MRNA_CHIERARCHICAL'

P value = 0.00093 (Fisher's exact test), Q value = 0.16

Table S138.  Gene #15: 'amp_11p13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 15(11P13) MUTATED 28 26 34 25 4
AMP PEAK 15(11P13) WILD-TYPE 73 126 80 63 54

Figure S138.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_11p13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S139.  Gene #15: 'amp_11p13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 15(11P13) MUTATED 32 73 17 87 8
AMP PEAK 15(11P13) WILD-TYPE 367 167 82 177 34

Figure S139.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11p13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S140.  Gene #15: 'amp_11p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 15(11P13) MUTATED 61 13 27 38 66 9 3
AMP PEAK 15(11P13) WILD-TYPE 129 130 207 123 178 43 13

Figure S140.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11p13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S141.  Gene #15: 'amp_11p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 15(11P13) MUTATED 59 35 14 51 49 9
AMP PEAK 15(11P13) WILD-TYPE 119 208 183 129 135 49

Figure S141.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11p13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S142.  Gene #15: 'amp_11p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 15(11P13) MUTATED 32 88 94
AMP PEAK 15(11P13) WILD-TYPE 274 334 203

Figure S142.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11p13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S143.  Gene #15: 'amp_11p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 15(11P13) MUTATED 10 31 92 39 42
AMP PEAK 15(11P13) WILD-TYPE 164 155 313 95 84

Figure S143.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11p13' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S144.  Gene #15: 'amp_11p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 15(11P13) MUTATED 50 25 61
AMP PEAK 15(11P13) WILD-TYPE 199 231 148

Figure S144.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_11p13' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S145.  Gene #15: 'amp_11p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 15(11P13) MUTATED 41 5 49 21 8 12
AMP PEAK 15(11P13) WILD-TYPE 86 62 144 114 117 55

Figure S145.  Get High-res Image Gene #15: 'amp_11p13' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11q13.3' versus 'MRNA_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.049

Table S146.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 16(11Q13.3) MUTATED 13 18 62 28 33 37 11 13
AMP PEAK 16(11Q13.3) WILD-TYPE 8 18 57 68 76 35 9 27

Figure S146.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_11q13.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S147.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 16(11Q13.3) MUTATED 55 57 68 24 11
AMP PEAK 16(11Q13.3) WILD-TYPE 46 95 46 64 47

Figure S147.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_11q13.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S148.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 16(11Q13.3) MUTATED 69 174 28 100 15
AMP PEAK 16(11Q13.3) WILD-TYPE 330 66 71 164 27

Figure S148.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q13.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S149.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 16(11Q13.3) MUTATED 48 60 95 22 25
AMP PEAK 16(11Q13.3) WILD-TYPE 84 137 82 66 103

Figure S149.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q13.3' versus 'RPPA_CHIERARCHICAL'

P value = 0.00062 (Fisher's exact test), Q value = 0.11

Table S150.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 16(11Q13.3) MUTATED 17 49 29 60 13
AMP PEAK 16(11Q13.3) WILD-TYPE 47 57 61 47 18

Figure S150.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_11q13.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S151.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 16(11Q13.3) MUTATED 61 40 55 69 136 16 9
AMP PEAK 16(11Q13.3) WILD-TYPE 129 103 179 92 108 36 7

Figure S151.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_11q13.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S152.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 16(11Q13.3) MUTATED 58 71 36 93 108 20
AMP PEAK 16(11Q13.3) WILD-TYPE 120 172 161 87 76 38

Figure S152.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11q13.3' versus 'MIRSEQ_CNMF'

P value = 0.00054 (Fisher's exact test), Q value = 0.099

Table S153.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 16(11Q13.3) MUTATED 86 176 116
AMP PEAK 16(11Q13.3) WILD-TYPE 220 246 181

Figure S153.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q13.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S154.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 16(11Q13.3) MUTATED 36 71 178 43 50
AMP PEAK 16(11Q13.3) WILD-TYPE 138 115 227 91 76

Figure S154.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q13.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00028 (Fisher's exact test), Q value = 0.055

Table S155.  Gene #16: 'amp_11q13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 16(11Q13.3) MUTATED 48 13 76 59 28 24
AMP PEAK 16(11Q13.3) WILD-TYPE 79 54 117 76 97 43

Figure S155.  Get High-res Image Gene #16: 'amp_11q13.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_11q14.1' versus 'MRNA_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.02

Table S156.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 17(11Q14.1) MUTATED 30 36 45 30 5
AMP PEAK 17(11Q14.1) WILD-TYPE 71 116 69 58 53

Figure S156.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_11q14.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S157.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 17(11Q14.1) MUTATED 40 94 18 97 9
AMP PEAK 17(11Q14.1) WILD-TYPE 359 146 81 167 33

Figure S157.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_11q14.1' versus 'METHLYATION_CNMF'

P value = 9e-05 (Fisher's exact test), Q value = 0.02

Table S158.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 17(11Q14.1) MUTATED 43 32 52 18 16
AMP PEAK 17(11Q14.1) WILD-TYPE 89 165 125 70 112

Figure S158.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_11q14.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S159.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 17(11Q14.1) MUTATED 64 24 34 49 75 7 5
AMP PEAK 17(11Q14.1) WILD-TYPE 126 119 200 112 169 45 11

Figure S159.  Get High-res Image Gene #17: '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 = 0.0083

Table S160.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 17(11Q14.1) MUTATED 61 38 25 63 54 17
AMP PEAK 17(11Q14.1) WILD-TYPE 117 205 172 117 130 41

Figure S160.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_11q14.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S161.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 17(11Q14.1) MUTATED 45 104 103
AMP PEAK 17(11Q14.1) WILD-TYPE 261 318 194

Figure S161.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_11q14.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.018

Table S162.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 17(11Q14.1) MUTATED 21 43 104 47 37
AMP PEAK 17(11Q14.1) WILD-TYPE 153 143 301 87 89

Figure S162.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_11q14.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S163.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 17(11Q14.1) MUTATED 55 38 70
AMP PEAK 17(11Q14.1) WILD-TYPE 194 218 139

Figure S163.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_11q14.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S164.  Gene #17: 'amp_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 17(11Q14.1) MUTATED 44 10 51 28 12 18
AMP PEAK 17(11Q14.1) WILD-TYPE 83 57 142 107 113 49

Figure S164.  Get High-res Image Gene #17: 'amp_11q14.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12p13.33' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S165.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 18(12P13.33) MUTATED 3 4 36 53 18 29 3 3
AMP PEAK 18(12P13.33) WILD-TYPE 18 32 83 43 91 43 17 37

Figure S165.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_12p13.33' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S166.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 18(12P13.33) MUTATED 30 16 44 49 10
AMP PEAK 18(12P13.33) WILD-TYPE 71 136 70 39 48

Figure S166.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_12p13.33' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S167.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 18(12P13.33) MUTATED 19 83 29 135 11
AMP PEAK 18(12P13.33) WILD-TYPE 380 157 70 129 31

Figure S167.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #3: 'CN_CNMF'

'amp_12p13.33' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S168.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 18(12P13.33) MUTATED 71 36 44 10 16
AMP PEAK 18(12P13.33) WILD-TYPE 61 161 133 78 112

Figure S168.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12p13.33' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S169.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 18(12P13.33) MUTATED 71 30 19
AMP PEAK 18(12P13.33) WILD-TYPE 78 102 98

Figure S169.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_12p13.33' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S170.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 18(12P13.33) MUTATED 15 15 47 33 10
AMP PEAK 18(12P13.33) WILD-TYPE 49 91 43 74 21

Figure S170.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_12p13.33' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S171.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 18(12P13.33) MUTATED 107 13 32 49 69 4 3
AMP PEAK 18(12P13.33) WILD-TYPE 83 130 202 112 175 48 13

Figure S171.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_12p13.33' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S172.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 18(12P13.33) MUTATED 101 29 22 60 51 14
AMP PEAK 18(12P13.33) WILD-TYPE 77 214 175 120 133 44

Figure S172.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_12p13.33' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S173.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 18(12P13.33) MUTATED 41 87 140
AMP PEAK 18(12P13.33) WILD-TYPE 265 335 157

Figure S173.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_12p13.33' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S174.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 18(12P13.33) MUTATED 14 28 104 76 46
AMP PEAK 18(12P13.33) WILD-TYPE 160 158 301 58 80

Figure S174.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12p13.33' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S175.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 18(12P13.33) MUTATED 41 35 101
AMP PEAK 18(12P13.33) WILD-TYPE 208 221 108

Figure S175.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_12p13.33' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S176.  Gene #18: 'amp_12p13.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 18(12P13.33) MUTATED 71 6 43 27 11 19
AMP PEAK 18(12P13.33) WILD-TYPE 56 61 150 108 114 48

Figure S176.  Get High-res Image Gene #18: 'amp_12p13.33' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_12q15' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S177.  Gene #19: 'amp_12q15' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 19(12Q15) MUTATED 4 6 54 21 20 35 7 6
AMP PEAK 19(12Q15) WILD-TYPE 17 30 65 75 89 37 13 34

Figure S177.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_12q15' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S178.  Gene #19: 'amp_12q15' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 19(12Q15) MUTATED 43 24 56 18 12
AMP PEAK 19(12Q15) WILD-TYPE 58 128 58 70 46

Figure S178.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_12q15' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S179.  Gene #19: 'amp_12q15' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 19(12Q15) MUTATED 29 130 32 68 10
AMP PEAK 19(12Q15) WILD-TYPE 370 110 67 196 32

Figure S179.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #3: 'CN_CNMF'

'amp_12q15' versus 'METHLYATION_CNMF'

P value = 0.00024 (Fisher's exact test), Q value = 0.049

Table S180.  Gene #19: 'amp_12q15' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 19(12Q15) MUTATED 24 50 61 13 20
AMP PEAK 19(12Q15) WILD-TYPE 108 147 116 75 108

Figure S180.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_12q15' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S181.  Gene #19: 'amp_12q15' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 19(12Q15) MUTATED 31 17 42 61 102 11 4
AMP PEAK 19(12Q15) WILD-TYPE 159 126 192 100 142 41 12

Figure S181.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_12q15' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S182.  Gene #19: 'amp_12q15' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 19(12Q15) MUTATED 29 40 28 85 74 12
AMP PEAK 19(12Q15) WILD-TYPE 149 203 169 95 110 46

Figure S182.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_12q15' versus 'MIRSEQ_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S183.  Gene #19: 'amp_12q15' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 19(12Q15) MUTATED 52 134 77
AMP PEAK 19(12Q15) WILD-TYPE 254 288 220

Figure S183.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_12q15' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S184.  Gene #19: 'amp_12q15' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 19(12Q15) MUTATED 20 44 141 21 37
AMP PEAK 19(12Q15) WILD-TYPE 154 142 264 113 89

Figure S184.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_12q15' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S185.  Gene #19: 'amp_12q15' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 19(12Q15) MUTATED 17 7 69 39 16 17
AMP PEAK 19(12Q15) WILD-TYPE 110 60 124 96 109 50

Figure S185.  Get High-res Image Gene #19: 'amp_12q15' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_13q34' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S186.  Gene #20: 'amp_13q34' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 20(13Q34) MUTATED 3 5 19 43 16 10 4 0
AMP PEAK 20(13Q34) WILD-TYPE 18 31 100 53 93 62 16 40

Figure S186.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_13q34' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S187.  Gene #20: 'amp_13q34' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 20(13Q34) MUTATED 17 14 23 38 8
AMP PEAK 20(13Q34) WILD-TYPE 84 138 91 50 50

Figure S187.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_13q34' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S188.  Gene #20: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 20(13Q34) MUTATED 25 39 12 94 6
AMP PEAK 20(13Q34) WILD-TYPE 374 201 87 170 36

Figure S188.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #3: 'CN_CNMF'

'amp_13q34' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S189.  Gene #20: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 20(13Q34) MUTATED 50 17 24 5 14
AMP PEAK 20(13Q34) WILD-TYPE 82 180 153 83 114

Figure S189.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_13q34' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S190.  Gene #20: 'amp_13q34' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 20(13Q34) MUTATED 50 22 12
AMP PEAK 20(13Q34) WILD-TYPE 99 110 105

Figure S190.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_13q34' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S191.  Gene #20: 'amp_13q34' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 20(13Q34) MUTATED 10 9 39 17 9
AMP PEAK 20(13Q34) WILD-TYPE 54 97 51 90 22

Figure S191.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_13q34' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S192.  Gene #20: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 20(13Q34) MUTATED 77 9 23 26 34 4 3
AMP PEAK 20(13Q34) WILD-TYPE 113 134 211 135 210 48 13

Figure S192.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_13q34' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S193.  Gene #20: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 20(13Q34) MUTATED 72 15 18 28 27 16
AMP PEAK 20(13Q34) WILD-TYPE 106 228 179 152 157 42

Figure S193.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S194.  Gene #20: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 20(13Q34) MUTATED 28 43 102
AMP PEAK 20(13Q34) WILD-TYPE 278 379 195

Figure S194.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_13q34' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S195.  Gene #20: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 20(13Q34) MUTATED 9 14 58 54 38
AMP PEAK 20(13Q34) WILD-TYPE 165 172 347 80 88

Figure S195.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_13q34' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S196.  Gene #20: 'amp_13q34' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 20(13Q34) MUTATED 24 21 62
AMP PEAK 20(13Q34) WILD-TYPE 225 235 147

Figure S196.  Get High-res Image Gene #20: '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 = 0.0083

Table S197.  Gene #20: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 20(13Q34) MUTATED 44 2 20 20 6 15
AMP PEAK 20(13Q34) WILD-TYPE 83 65 173 115 119 52

Figure S197.  Get High-res Image Gene #20: 'amp_13q34' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_14q21.1' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S198.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 21(14Q21.1) MUTATED 5 9 33 11 21 26 6 0
AMP PEAK 21(14Q21.1) WILD-TYPE 16 27 86 85 88 46 14 40

Figure S198.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_14q21.1' versus 'MRNA_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S199.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 21(14Q21.1) MUTATED 29 24 42 8 8
AMP PEAK 21(14Q21.1) WILD-TYPE 72 128 72 80 50

Figure S199.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_14q21.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S200.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 21(14Q21.1) MUTATED 34 92 25 52 10
AMP PEAK 21(14Q21.1) WILD-TYPE 365 148 74 212 32

Figure S200.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_14q21.1' versus 'METHLYATION_CNMF'

P value = 4e-05 (Fisher's exact test), Q value = 0.0097

Table S201.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 21(14Q21.1) MUTATED 17 33 55 12 15
AMP PEAK 21(14Q21.1) WILD-TYPE 115 164 122 76 113

Figure S201.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_14q21.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S202.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 21(14Q21.1) MUTATED 21 17 43 51 72 3 4
AMP PEAK 21(14Q21.1) WILD-TYPE 169 126 191 110 172 49 12

Figure S202.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_14q21.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S203.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 21(14Q21.1) MUTATED 17 27 31 73 46 17
AMP PEAK 21(14Q21.1) WILD-TYPE 161 216 166 107 138 41

Figure S203.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_14q21.1' versus 'MIRSEQ_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.016

Table S204.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 21(14Q21.1) MUTATED 39 110 58
AMP PEAK 21(14Q21.1) WILD-TYPE 267 312 239

Figure S204.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_14q21.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S205.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 21(14Q21.1) MUTATED 16 22 122 11 36
AMP PEAK 21(14Q21.1) WILD-TYPE 158 164 283 123 90

Figure S205.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_14q21.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S206.  Gene #21: 'amp_14q21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 21(14Q21.1) MUTATED 14 5 61 32 11 19
AMP PEAK 21(14Q21.1) WILD-TYPE 113 62 132 103 114 48

Figure S206.  Get High-res Image Gene #21: 'amp_14q21.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_15q26.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S207.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 22(15Q26.3) MUTATED 3 8 31 32 4 16 8 2
AMP PEAK 22(15Q26.3) WILD-TYPE 18 28 88 64 105 56 12 38

Figure S207.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_15q26.3' versus 'MRNA_CHIERARCHICAL'

P value = 0.00015 (Fisher's exact test), Q value = 0.031

Table S208.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 22(15Q26.3) MUTATED 23 23 25 30 3
AMP PEAK 22(15Q26.3) WILD-TYPE 78 129 89 58 55

Figure S208.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_15q26.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S209.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 22(15Q26.3) MUTATED 28 59 8 90 2
AMP PEAK 22(15Q26.3) WILD-TYPE 371 181 91 174 40

Figure S209.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #3: 'CN_CNMF'

'amp_15q26.3' versus 'METHLYATION_CNMF'

P value = 0.00115 (Fisher's exact test), Q value = 0.19

Table S210.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 22(15Q26.3) MUTATED 36 19 27 14 17
AMP PEAK 22(15Q26.3) WILD-TYPE 96 178 150 74 111

Figure S210.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S211.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 22(15Q26.3) MUTATED 63 15 19 27 56 3 3
AMP PEAK 22(15Q26.3) WILD-TYPE 127 128 215 134 188 49 13

Figure S211.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_15q26.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S212.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 22(15Q26.3) MUTATED 60 21 18 34 46 7
AMP PEAK 22(15Q26.3) WILD-TYPE 118 222 179 146 138 51

Figure S212.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_15q26.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S213.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 22(15Q26.3) MUTATED 33 64 83
AMP PEAK 22(15Q26.3) WILD-TYPE 273 358 214

Figure S213.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_15q26.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S214.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 22(15Q26.3) MUTATED 8 21 71 44 36
AMP PEAK 22(15Q26.3) WILD-TYPE 166 165 334 90 90

Figure S214.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_15q26.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.031

Table S215.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 22(15Q26.3) MUTATED 41 28 54
AMP PEAK 22(15Q26.3) WILD-TYPE 208 228 155

Figure S215.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_15q26.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S216.  Gene #22: 'amp_15q26.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 22(15Q26.3) MUTATED 39 6 38 20 8 12
AMP PEAK 22(15Q26.3) WILD-TYPE 88 61 155 115 117 55

Figure S216.  Get High-res Image Gene #22: 'amp_15q26.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q12' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S217.  Gene #23: 'amp_17q12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 23(17Q12) MUTATED 9 11 53 19 14 49 7 4
AMP PEAK 23(17Q12) WILD-TYPE 12 25 66 77 95 23 13 36

Figure S217.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_17q12' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S218.  Gene #23: 'amp_17q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 23(17Q12) MUTATED 40 28 71 16 11
AMP PEAK 23(17Q12) WILD-TYPE 61 124 43 72 47

Figure S218.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_17q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S219.  Gene #23: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 23(17Q12) MUTATED 59 159 25 64 13
AMP PEAK 23(17Q12) WILD-TYPE 340 81 74 200 29

Figure S219.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S220.  Gene #23: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 23(17Q12) MUTATED 33 46 85 23 29
AMP PEAK 23(17Q12) WILD-TYPE 99 151 92 65 99

Figure S220.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q12' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S221.  Gene #23: 'amp_17q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 23(17Q12) MUTATED 9 28 20 41 31
AMP PEAK 23(17Q12) WILD-TYPE 55 78 70 66 0

Figure S221.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_17q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S222.  Gene #23: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 23(17Q12) MUTATED 35 28 37 101 108 6 4
AMP PEAK 23(17Q12) WILD-TYPE 155 115 197 60 136 46 12

Figure S222.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S223.  Gene #23: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 23(17Q12) MUTATED 31 44 28 91 88 37
AMP PEAK 23(17Q12) WILD-TYPE 147 199 169 89 96 21

Figure S223.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_CNMF'

P value = 0.00118 (Fisher's exact test), Q value = 0.2

Table S224.  Gene #23: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 23(17Q12) MUTATED 70 148 95
AMP PEAK 23(17Q12) WILD-TYPE 236 274 202

Figure S224.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S225.  Gene #23: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 23(17Q12) MUTATED 25 52 164 20 52
AMP PEAK 23(17Q12) WILD-TYPE 149 134 241 114 74

Figure S225.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S226.  Gene #23: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 23(17Q12) MUTATED 24 14 70 53 16 41
AMP PEAK 23(17Q12) WILD-TYPE 103 53 123 82 109 26

Figure S226.  Get High-res Image Gene #23: 'amp_17q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_17q23.1' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S227.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 24(17Q23.1) MUTATED 9 17 81 29 16 44 11 9
AMP PEAK 24(17Q23.1) WILD-TYPE 12 19 38 67 93 28 9 31

Figure S227.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_17q23.1' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S228.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 24(17Q23.1) MUTATED 62 45 71 25 13
AMP PEAK 24(17Q23.1) WILD-TYPE 39 107 43 63 45

Figure S228.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_17q23.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S229.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 24(17Q23.1) MUTATED 69 189 28 113 18
AMP PEAK 24(17Q23.1) WILD-TYPE 330 51 71 151 24

Figure S229.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #3: 'CN_CNMF'

'amp_17q23.1' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S230.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 24(17Q23.1) MUTATED 52 61 99 28 40
AMP PEAK 24(17Q23.1) WILD-TYPE 80 136 78 60 88

Figure S230.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_17q23.1' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S231.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 24(17Q23.1) MUTATED 13 40 26 68 19
AMP PEAK 24(17Q23.1) WILD-TYPE 51 66 64 39 12

Figure S231.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_17q23.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S232.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 24(17Q23.1) MUTATED 66 40 40 91 156 14 9
AMP PEAK 24(17Q23.1) WILD-TYPE 124 103 194 70 88 38 7

Figure S232.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_17q23.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S233.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 24(17Q23.1) MUTATED 59 68 32 111 117 29
AMP PEAK 24(17Q23.1) WILD-TYPE 119 175 165 69 67 29

Figure S233.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_17q23.1' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S234.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 24(17Q23.1) MUTATED 80 187 142
AMP PEAK 24(17Q23.1) WILD-TYPE 226 235 155

Figure S234.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_17q23.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S235.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 24(17Q23.1) MUTATED 33 71 197 43 65
AMP PEAK 24(17Q23.1) WILD-TYPE 141 115 208 91 61

Figure S235.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_17q23.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.016

Table S236.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 24(17Q23.1) MUTATED 97 74 102
AMP PEAK 24(17Q23.1) WILD-TYPE 152 182 107

Figure S236.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_17q23.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S237.  Gene #24: 'amp_17q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 24(17Q23.1) MUTATED 46 19 83 63 23 39
AMP PEAK 24(17Q23.1) WILD-TYPE 81 48 110 72 102 28

Figure S237.  Get High-res Image Gene #24: 'amp_17q23.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19p13.12' versus 'MRNA_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.018

Table S238.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 25(19P13.12) MUTATED 5 6 22 40 16 11 5 4
AMP PEAK 25(19P13.12) WILD-TYPE 16 30 97 56 93 61 15 36

Figure S238.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19p13.12' versus 'MRNA_CHIERARCHICAL'

P value = 0.00026 (Fisher's exact test), Q value = 0.052

Table S239.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 25(19P13.12) MUTATED 19 21 23 35 11
AMP PEAK 25(19P13.12) WILD-TYPE 82 131 91 53 47

Figure S239.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19p13.12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S240.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 25(19P13.12) MUTATED 36 47 30 98 10
AMP PEAK 25(19P13.12) WILD-TYPE 363 193 69 166 32

Figure S240.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19p13.12' versus 'METHLYATION_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.012

Table S241.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 25(19P13.12) MUTATED 47 25 31 16 26
AMP PEAK 25(19P13.12) WILD-TYPE 85 172 146 72 102

Figure S241.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19p13.12' versus 'RPPA_CNMF'

P value = 0.00089 (Fisher's exact test), Q value = 0.15

Table S242.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 25(19P13.12) MUTATED 49 25 17
AMP PEAK 25(19P13.12) WILD-TYPE 100 107 100

Figure S242.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19p13.12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S243.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 25(19P13.12) MUTATED 78 27 29 32 42 6 5
AMP PEAK 25(19P13.12) WILD-TYPE 112 116 205 129 202 46 11

Figure S243.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19p13.12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S244.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 25(19P13.12) MUTATED 72 41 22 35 36 13
AMP PEAK 25(19P13.12) WILD-TYPE 106 202 175 145 148 45

Figure S244.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19p13.12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S245.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 25(19P13.12) MUTATED 55 60 100
AMP PEAK 25(19P13.12) WILD-TYPE 251 362 197

Figure S245.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19p13.12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S246.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 25(19P13.12) MUTATED 27 23 73 56 36
AMP PEAK 25(19P13.12) WILD-TYPE 147 163 332 78 90

Figure S246.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19p13.12' versus 'MIRSEQ_MATURE_CNMF'

P value = 5e-05 (Fisher's exact test), Q value = 0.012

Table S247.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 25(19P13.12) MUTATED 41 46 68
AMP PEAK 25(19P13.12) WILD-TYPE 208 210 141

Figure S247.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_19p13.12' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.0083

Table S248.  Gene #25: 'amp_19p13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 25(19P13.12) MUTATED 49 13 33 25 17 18
AMP PEAK 25(19P13.12) WILD-TYPE 78 54 160 110 108 49

Figure S248.  Get High-res Image Gene #25: 'amp_19p13.12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q12' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S249.  Gene #26: 'amp_19q12' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 26(19Q12) MUTATED 4 5 29 55 15 20 7 5
AMP PEAK 26(19Q12) WILD-TYPE 17 31 90 41 94 52 13 35

Figure S249.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19q12' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S250.  Gene #26: 'amp_19q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 26(19Q12) MUTATED 20 24 35 50 11
AMP PEAK 26(19Q12) WILD-TYPE 81 128 79 38 47

Figure S250.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_19q12' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S251.  Gene #26: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 26(19Q12) MUTATED 36 54 32 138 13
AMP PEAK 26(19Q12) WILD-TYPE 363 186 67 126 29

Figure S251.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19q12' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S252.  Gene #26: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 26(19Q12) MUTATED 69 29 43 15 25
AMP PEAK 26(19Q12) WILD-TYPE 63 168 134 73 103

Figure S252.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19q12' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S253.  Gene #26: 'amp_19q12' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 26(19Q12) MUTATED 64 22 24
AMP PEAK 26(19Q12) WILD-TYPE 85 110 93

Figure S253.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19q12' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S254.  Gene #26: 'amp_19q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 26(19Q12) MUTATED 15 21 46 18 10
AMP PEAK 26(19Q12) WILD-TYPE 49 85 44 89 21

Figure S254.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_19q12' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S255.  Gene #26: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 26(19Q12) MUTATED 106 24 31 48 52 5 6
AMP PEAK 26(19Q12) WILD-TYPE 84 119 203 113 192 47 10

Figure S255.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19q12' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S256.  Gene #26: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 26(19Q12) MUTATED 101 40 22 45 41 23
AMP PEAK 26(19Q12) WILD-TYPE 77 203 175 135 143 35

Figure S256.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S257.  Gene #26: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 26(19Q12) MUTATED 51 78 140
AMP PEAK 26(19Q12) WILD-TYPE 255 344 157

Figure S257.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19q12' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S258.  Gene #26: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 26(19Q12) MUTATED 24 26 91 75 53
AMP PEAK 26(19Q12) WILD-TYPE 150 160 314 59 73

Figure S258.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_19q12' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S259.  Gene #26: 'amp_19q12' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 26(19Q12) MUTATED 46 48 97
AMP PEAK 26(19Q12) WILD-TYPE 203 208 112

Figure S259.  Get High-res Image Gene #26: '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 = 0.0083

Table S260.  Gene #26: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 26(19Q12) MUTATED 70 12 44 30 14 21
AMP PEAK 26(19Q12) WILD-TYPE 57 55 149 105 111 46

Figure S260.  Get High-res Image Gene #26: 'amp_19q12' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'amp_19q13.42' versus 'MRNA_CNMF'

P value = 0.00044 (Fisher's exact test), Q value = 0.082

Table S261.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 27(19Q13.42) MUTATED 5 8 36 40 17 20 10 6
AMP PEAK 27(19Q13.42) WILD-TYPE 16 28 83 56 92 52 10 34

Figure S261.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_19q13.42' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S262.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 27(19Q13.42) MUTATED 39 72 34 106 17
AMP PEAK 27(19Q13.42) WILD-TYPE 360 168 65 158 25

Figure S262.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #3: 'CN_CNMF'

'amp_19q13.42' versus 'METHLYATION_CNMF'

P value = 0.00095 (Fisher's exact test), Q value = 0.16

Table S263.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 27(19Q13.42) MUTATED 42 35 56 19 21
AMP PEAK 27(19Q13.42) WILD-TYPE 90 162 121 69 107

Figure S263.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_19q13.42' versus 'RPPA_CNMF'

P value = 0.00122 (Fisher's exact test), Q value = 0.2

Table S264.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 27(19Q13.42) MUTATED 57 26 27
AMP PEAK 27(19Q13.42) WILD-TYPE 92 106 90

Figure S264.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_19q13.42' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S265.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 27(19Q13.42) MUTATED 67 29 34 48 74 6 9
AMP PEAK 27(19Q13.42) WILD-TYPE 123 114 200 113 170 46 7

Figure S265.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_19q13.42' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S266.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 27(19Q13.42) MUTATED 61 47 25 58 58 18
AMP PEAK 27(19Q13.42) WILD-TYPE 117 196 172 122 126 40

Figure S266.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_19q13.42' versus 'MIRSEQ_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.023

Table S267.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 27(19Q13.42) MUTATED 62 99 103
AMP PEAK 27(19Q13.42) WILD-TYPE 244 323 194

Figure S267.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_19q13.42' versus 'MIRSEQ_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 0.012

Table S268.  Gene #27: 'amp_19q13.42' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 27(19Q13.42) MUTATED 28 36 109 44 47
AMP PEAK 27(19Q13.42) WILD-TYPE 146 150 296 90 79

Figure S268.  Get High-res Image Gene #27: 'amp_19q13.42' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.2' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S269.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
AMP PEAK 28(20Q13.2) MUTATED 12 18 85 52 35 49 15 10
AMP PEAK 28(20Q13.2) WILD-TYPE 9 18 34 44 74 23 5 30

Figure S269.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'amp_20q13.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S270.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
AMP PEAK 28(20Q13.2) MUTATED 73 56 86 44 17
AMP PEAK 28(20Q13.2) WILD-TYPE 28 96 28 44 41

Figure S270.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'amp_20q13.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S271.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
AMP PEAK 28(20Q13.2) MUTATED 78 197 60 175 25
AMP PEAK 28(20Q13.2) WILD-TYPE 321 43 39 89 17

Figure S271.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #3: 'CN_CNMF'

'amp_20q13.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S272.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
AMP PEAK 28(20Q13.2) MUTATED 83 78 113 29 49
AMP PEAK 28(20Q13.2) WILD-TYPE 49 119 64 59 79

Figure S272.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'amp_20q13.2' versus 'RPPA_CNMF'

P value = 6e-04 (Fisher's exact test), Q value = 0.11

Table S273.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
AMP PEAK 28(20Q13.2) MUTATED 101 66 54
AMP PEAK 28(20Q13.2) WILD-TYPE 48 66 63

Figure S273.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'amp_20q13.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00027 (Fisher's exact test), Q value = 0.053

Table S274.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
AMP PEAK 28(20Q13.2) MUTATED 29 44 53 73 22
AMP PEAK 28(20Q13.2) WILD-TYPE 35 62 37 34 9

Figure S274.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'amp_20q13.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S275.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
AMP PEAK 28(20Q13.2) MUTATED 104 45 79 106 170 18 10
AMP PEAK 28(20Q13.2) WILD-TYPE 86 98 155 55 74 34 6

Figure S275.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'amp_20q13.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S276.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
AMP PEAK 28(20Q13.2) MUTATED 96 86 52 130 135 33
AMP PEAK 28(20Q13.2) WILD-TYPE 82 157 145 50 49 25

Figure S276.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'amp_20q13.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S277.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
AMP PEAK 28(20Q13.2) MUTATED 113 233 181
AMP PEAK 28(20Q13.2) WILD-TYPE 193 189 116

Figure S277.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'amp_20q13.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S278.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
AMP PEAK 28(20Q13.2) MUTATED 49 80 248 71 79
AMP PEAK 28(20Q13.2) WILD-TYPE 125 106 157 63 47

Figure S278.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'amp_20q13.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S279.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
AMP PEAK 28(20Q13.2) MUTATED 140 95 129
AMP PEAK 28(20Q13.2) WILD-TYPE 109 161 80

Figure S279.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'amp_20q13.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S280.  Gene #28: 'amp_20q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
AMP PEAK 28(20Q13.2) MUTATED 72 22 123 69 36 42
AMP PEAK 28(20Q13.2) WILD-TYPE 55 45 70 66 89 25

Figure S280.  Get High-res Image Gene #28: 'amp_20q13.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_1p36.13' versus 'MRNA_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.016

Table S281.  Gene #29: 'del_1p36.13' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 1(1P36.13) MUTATED 9 11 61 42 31 46 7 12
DEL PEAK 1(1P36.13) WILD-TYPE 12 25 58 54 78 26 13 28

Figure S281.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_1p36.13' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S282.  Gene #29: 'del_1p36.13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 1(1P36.13) MUTATED 57 39 67 39 17
DEL PEAK 1(1P36.13) WILD-TYPE 44 113 47 49 41

Figure S282.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_1p36.13' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S283.  Gene #29: 'del_1p36.13' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 1(1P36.13) MUTATED 68 157 60 135 17
DEL PEAK 1(1P36.13) WILD-TYPE 331 83 39 129 25

Figure S283.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #3: 'CN_CNMF'

'del_1p36.13' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S284.  Gene #29: 'del_1p36.13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 1(1P36.13) MUTATED 58 64 110 24 36
DEL PEAK 1(1P36.13) WILD-TYPE 74 133 67 64 92

Figure S284.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p36.13' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S285.  Gene #29: 'del_1p36.13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 1(1P36.13) MUTATED 79 32 82 89 127 18 7
DEL PEAK 1(1P36.13) WILD-TYPE 111 111 152 72 117 34 9

Figure S285.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_1p36.13' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S286.  Gene #29: 'del_1p36.13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 1(1P36.13) MUTATED 79 75 54 113 97 16
DEL PEAK 1(1P36.13) WILD-TYPE 99 168 143 67 87 42

Figure S286.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_1p36.13' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S287.  Gene #29: 'del_1p36.13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 1(1P36.13) MUTATED 92 190 141
DEL PEAK 1(1P36.13) WILD-TYPE 214 232 156

Figure S287.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_1p36.13' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S288.  Gene #29: 'del_1p36.13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 1(1P36.13) MUTATED 40 61 210 60 52
DEL PEAK 1(1P36.13) WILD-TYPE 134 125 195 74 74

Figure S288.  Get High-res Image Gene #29: 'del_1p36.13' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_1p21.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S289.  Gene #30: 'del_1p21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 2(1P21.2) MUTATED 47 37 60 20 15
DEL PEAK 2(1P21.2) WILD-TYPE 54 115 54 68 43

Figure S289.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_1p21.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S290.  Gene #30: 'del_1p21.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 2(1P21.2) MUTATED 62 129 57 84 13
DEL PEAK 2(1P21.2) WILD-TYPE 337 111 42 180 29

Figure S290.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_1p21.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S291.  Gene #30: 'del_1p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 2(1P21.2) MUTATED 36 54 86 22 26
DEL PEAK 2(1P21.2) WILD-TYPE 96 143 91 66 102

Figure S291.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_1p21.2' versus 'RPPA_CNMF'

P value = 0.00031 (Fisher's exact test), Q value = 0.06

Table S292.  Gene #30: 'del_1p21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 2(1P21.2) MUTATED 61 50 23
DEL PEAK 2(1P21.2) WILD-TYPE 88 82 94

Figure S292.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_1p21.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S293.  Gene #30: 'del_1p21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 2(1P21.2) MUTATED 43 30 75 79 103 9 4
DEL PEAK 2(1P21.2) WILD-TYPE 147 113 159 82 141 43 12

Figure S293.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_1p21.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S294.  Gene #30: 'del_1p21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 2(1P21.2) MUTATED 39 67 47 101 74 15
DEL PEAK 2(1P21.2) WILD-TYPE 139 176 150 79 110 43

Figure S294.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_1p21.2' versus 'MIRSEQ_CNMF'

P value = 0.00149 (Fisher's exact test), Q value = 0.24

Table S295.  Gene #30: 'del_1p21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 2(1P21.2) MUTATED 81 164 93
DEL PEAK 2(1P21.2) WILD-TYPE 225 258 204

Figure S295.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_1p21.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S296.  Gene #30: 'del_1p21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 2(1P21.2) MUTATED 39 49 180 28 42
DEL PEAK 2(1P21.2) WILD-TYPE 135 137 225 106 84

Figure S296.  Get High-res Image Gene #30: 'del_1p21.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2p25.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S297.  Gene #31: 'del_2p25.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 3(2P25.1) MUTATED 33 72 29 53 11
DEL PEAK 3(2P25.1) WILD-TYPE 366 168 70 211 31

Figure S297.  Get High-res Image Gene #31: 'del_2p25.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_2p25.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S298.  Gene #31: 'del_2p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 3(2P25.1) MUTATED 29 32 34 46 52 2
DEL PEAK 3(2P25.1) WILD-TYPE 149 211 163 134 132 56

Figure S298.  Get High-res Image Gene #31: 'del_2p25.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_2p25.1' versus 'MIRSEQ_CNMF'

P value = 0.00019 (Fisher's exact test), Q value = 0.039

Table S299.  Gene #31: 'del_2p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 3(2P25.1) MUTATED 40 104 47
DEL PEAK 3(2P25.1) WILD-TYPE 266 318 250

Figure S299.  Get High-res Image Gene #31: 'del_2p25.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2p25.1' versus 'MIRSEQ_CHIERARCHICAL'

P value = 9e-05 (Fisher's exact test), Q value = 0.02

Table S300.  Gene #31: 'del_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 3(2P25.1) MUTATED 18 41 96 23 13
DEL PEAK 3(2P25.1) WILD-TYPE 156 145 309 111 113

Figure S300.  Get High-res Image Gene #31: 'del_2p25.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2q37.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S301.  Gene #32: 'del_2q37.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 4(2Q37.3) MUTATED 5 9 42 49 24 28 6 0
DEL PEAK 4(2Q37.3) WILD-TYPE 16 27 77 47 85 44 14 40

Figure S301.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_2q37.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S302.  Gene #32: 'del_2q37.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 4(2Q37.3) MUTATED 40 22 48 43 10
DEL PEAK 4(2Q37.3) WILD-TYPE 61 130 66 45 48

Figure S302.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_2q37.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S303.  Gene #32: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 4(2Q37.3) MUTATED 40 97 31 128 14
DEL PEAK 4(2Q37.3) WILD-TYPE 359 143 68 136 28

Figure S303.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_2q37.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S304.  Gene #32: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 4(2Q37.3) MUTATED 64 46 49 15 19
DEL PEAK 4(2Q37.3) WILD-TYPE 68 151 128 73 109

Figure S304.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_2q37.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S305.  Gene #32: 'del_2q37.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 4(2Q37.3) MUTATED 73 40 14
DEL PEAK 4(2Q37.3) WILD-TYPE 76 92 103

Figure S305.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_2q37.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S306.  Gene #32: 'del_2q37.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 4(2Q37.3) MUTATED 19 10 41 45 12
DEL PEAK 4(2Q37.3) WILD-TYPE 45 96 49 62 19

Figure S306.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_2q37.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S307.  Gene #32: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 4(2Q37.3) MUTATED 93 19 50 59 79 4 3
DEL PEAK 4(2Q37.3) WILD-TYPE 97 124 184 102 165 48 13

Figure S307.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_2q37.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S308.  Gene #32: 'del_2q37.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 4(2Q37.3) MUTATED 87 30 34 75 67 14
DEL PEAK 4(2Q37.3) WILD-TYPE 91 213 163 105 117 44

Figure S308.  Get High-res Image Gene #32: '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 = 0.0083

Table S309.  Gene #32: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 4(2Q37.3) MUTATED 47 122 133
DEL PEAK 4(2Q37.3) WILD-TYPE 259 300 164

Figure S309.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_2q37.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S310.  Gene #32: 'del_2q37.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 4(2Q37.3) MUTATED 17 47 128 68 42
DEL PEAK 4(2Q37.3) WILD-TYPE 157 139 277 66 84

Figure S310.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_2q37.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S311.  Gene #32: 'del_2q37.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 4(2Q37.3) MUTATED 65 37 102
DEL PEAK 4(2Q37.3) WILD-TYPE 184 219 107

Figure S311.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_2q37.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S312.  Gene #32: 'del_2q37.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 4(2Q37.3) MUTATED 64 13 65 34 10 18
DEL PEAK 4(2Q37.3) WILD-TYPE 63 54 128 101 115 49

Figure S312.  Get High-res Image Gene #32: 'del_2q37.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_3p21.31' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S313.  Gene #33: 'del_3p21.31' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 5(3P21.31) MUTATED 5 15 38 52 8 35 9 7
DEL PEAK 5(3P21.31) WILD-TYPE 16 21 81 44 101 37 11 33

Figure S313.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_3p21.31' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S314.  Gene #33: 'del_3p21.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 5(3P21.31) MUTATED 29 36 55 48 1
DEL PEAK 5(3P21.31) WILD-TYPE 72 116 59 40 57

Figure S314.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_3p21.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S315.  Gene #33: 'del_3p21.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 5(3P21.31) MUTATED 56 92 20 165 4
DEL PEAK 5(3P21.31) WILD-TYPE 343 148 79 99 38

Figure S315.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #3: 'CN_CNMF'

'del_3p21.31' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S316.  Gene #33: 'del_3p21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 5(3P21.31) MUTATED 70 31 74 23 27
DEL PEAK 5(3P21.31) WILD-TYPE 62 166 103 65 101

Figure S316.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_3p21.31' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S317.  Gene #33: 'del_3p21.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 5(3P21.31) MUTATED 81 27 36
DEL PEAK 5(3P21.31) WILD-TYPE 68 105 81

Figure S317.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_3p21.31' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S318.  Gene #33: 'del_3p21.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 5(3P21.31) MUTATED 5 32 55 41 11
DEL PEAK 5(3P21.31) WILD-TYPE 59 74 35 66 20

Figure S318.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_3p21.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S319.  Gene #33: 'del_3p21.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 5(3P21.31) MUTATED 103 30 27 76 81 12 7
DEL PEAK 5(3P21.31) WILD-TYPE 87 113 207 85 163 40 9

Figure S319.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_3p21.31' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S320.  Gene #33: 'del_3p21.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 5(3P21.31) MUTATED 98 51 23 90 50 24
DEL PEAK 5(3P21.31) WILD-TYPE 80 192 174 90 134 34

Figure S320.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_3p21.31' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S321.  Gene #33: 'del_3p21.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 5(3P21.31) MUTATED 58 117 155
DEL PEAK 5(3P21.31) WILD-TYPE 248 305 142

Figure S321.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_3p21.31' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S322.  Gene #33: 'del_3p21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 5(3P21.31) MUTATED 28 35 136 74 57
DEL PEAK 5(3P21.31) WILD-TYPE 146 151 269 60 69

Figure S322.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_3p21.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S323.  Gene #33: 'del_3p21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 5(3P21.31) MUTATED 63 55 110
DEL PEAK 5(3P21.31) WILD-TYPE 186 201 99

Figure S323.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_3p21.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S324.  Gene #33: 'del_3p21.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 5(3P21.31) MUTATED 68 12 63 31 23 31
DEL PEAK 5(3P21.31) WILD-TYPE 59 55 130 104 102 36

Figure S324.  Get High-res Image Gene #33: 'del_3p21.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4p16.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S325.  Gene #34: 'del_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 6(4P16.3) MUTATED 3 10 25 58 22 38 7 6
DEL PEAK 6(4P16.3) WILD-TYPE 18 26 94 38 87 34 13 34

Figure S325.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4p16.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S326.  Gene #34: 'del_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 6(4P16.3) MUTATED 27 28 51 52 11
DEL PEAK 6(4P16.3) WILD-TYPE 74 124 63 36 47

Figure S326.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4p16.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S327.  Gene #34: 'del_4p16.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 6(4P16.3) MUTATED 47 69 45 159 10
DEL PEAK 6(4P16.3) WILD-TYPE 352 171 54 105 32

Figure S327.  Get High-res Image Gene #34: '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 = 0.0083

Table S328.  Gene #34: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 6(4P16.3) MUTATED 84 40 50 15 29
DEL PEAK 6(4P16.3) WILD-TYPE 48 157 127 73 99

Figure S328.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4p16.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S329.  Gene #34: 'del_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 6(4P16.3) MUTATED 77 38 25
DEL PEAK 6(4P16.3) WILD-TYPE 72 94 92

Figure S329.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4p16.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S330.  Gene #34: 'del_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 6(4P16.3) MUTATED 18 25 54 32 11
DEL PEAK 6(4P16.3) WILD-TYPE 46 81 36 75 20

Figure S330.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4p16.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S331.  Gene #34: 'del_4p16.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 6(4P16.3) MUTATED 117 20 54 70 53 7 7
DEL PEAK 6(4P16.3) WILD-TYPE 73 123 180 91 191 45 9

Figure S331.  Get High-res Image Gene #34: '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 = 0.0083

Table S332.  Gene #34: 'del_4p16.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 6(4P16.3) MUTATED 110 38 37 74 39 30
DEL PEAK 6(4P16.3) WILD-TYPE 68 205 160 106 145 28

Figure S332.  Get High-res Image Gene #34: '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 = 0.0083

Table S333.  Gene #34: 'del_4p16.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 6(4P16.3) MUTATED 50 113 156
DEL PEAK 6(4P16.3) WILD-TYPE 256 309 141

Figure S333.  Get High-res Image Gene #34: '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 = 0.0083

Table S334.  Gene #34: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 6(4P16.3) MUTATED 23 35 124 84 53
DEL PEAK 6(4P16.3) WILD-TYPE 151 151 281 50 73

Figure S334.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4p16.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S335.  Gene #34: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 6(4P16.3) MUTATED 65 48 111
DEL PEAK 6(4P16.3) WILD-TYPE 184 208 98

Figure S335.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4p16.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S336.  Gene #34: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 6(4P16.3) MUTATED 76 13 62 23 20 30
DEL PEAK 6(4P16.3) WILD-TYPE 51 54 131 112 105 37

Figure S336.  Get High-res Image Gene #34: 'del_4p16.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_4q35.2' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S337.  Gene #35: 'del_4q35.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 7(4Q35.2) MUTATED 7 10 26 52 24 32 10 9
DEL PEAK 7(4Q35.2) WILD-TYPE 14 26 93 44 85 40 10 31

Figure S337.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_4q35.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S338.  Gene #35: 'del_4q35.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 7(4Q35.2) MUTATED 26 32 52 47 13
DEL PEAK 7(4Q35.2) WILD-TYPE 75 120 62 41 45

Figure S338.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_4q35.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S339.  Gene #35: 'del_4q35.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 7(4Q35.2) MUTATED 50 60 50 167 10
DEL PEAK 7(4Q35.2) WILD-TYPE 349 180 49 97 32

Figure S339.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_4q35.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S340.  Gene #35: 'del_4q35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 7(4Q35.2) MUTATED 85 37 43 20 37
DEL PEAK 7(4Q35.2) WILD-TYPE 47 160 134 68 91

Figure S340.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_4q35.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S341.  Gene #35: 'del_4q35.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 7(4Q35.2) MUTATED 79 35 26
DEL PEAK 7(4Q35.2) WILD-TYPE 70 97 91

Figure S341.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_4q35.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S342.  Gene #35: 'del_4q35.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 7(4Q35.2) MUTATED 15 25 52 37 11
DEL PEAK 7(4Q35.2) WILD-TYPE 49 81 38 70 20

Figure S342.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_4q35.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S343.  Gene #35: 'del_4q35.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 7(4Q35.2) MUTATED 119 20 60 68 53 7 8
DEL PEAK 7(4Q35.2) WILD-TYPE 71 123 174 93 191 45 8

Figure S343.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_4q35.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S344.  Gene #35: 'del_4q35.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 7(4Q35.2) MUTATED 113 42 42 81 34 23
DEL PEAK 7(4Q35.2) WILD-TYPE 65 201 155 99 150 35

Figure S344.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_4q35.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S345.  Gene #35: 'del_4q35.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 7(4Q35.2) MUTATED 55 111 158
DEL PEAK 7(4Q35.2) WILD-TYPE 251 311 139

Figure S345.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_4q35.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S346.  Gene #35: 'del_4q35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 7(4Q35.2) MUTATED 23 36 121 88 56
DEL PEAK 7(4Q35.2) WILD-TYPE 151 150 284 46 70

Figure S346.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_4q35.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S347.  Gene #35: 'del_4q35.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 7(4Q35.2) MUTATED 63 49 113
DEL PEAK 7(4Q35.2) WILD-TYPE 186 207 96

Figure S347.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_4q35.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S348.  Gene #35: 'del_4q35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 7(4Q35.2) MUTATED 79 14 68 20 19 25
DEL PEAK 7(4Q35.2) WILD-TYPE 48 53 125 115 106 42

Figure S348.  Get High-res Image Gene #35: 'del_4q35.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_5q11.2' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S349.  Gene #36: 'del_5q11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 8(5Q11.2) MUTATED 3 5 19 69 7 26 3 4
DEL PEAK 8(5Q11.2) WILD-TYPE 18 31 100 27 102 46 17 36

Figure S349.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_5q11.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S350.  Gene #36: 'del_5q11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 8(5Q11.2) MUTATED 18 15 38 63 2
DEL PEAK 8(5Q11.2) WILD-TYPE 83 137 76 25 56

Figure S350.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_5q11.2' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S351.  Gene #36: 'del_5q11.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 8(5Q11.2) MUTATED 29 38 8 187 10
DEL PEAK 8(5Q11.2) WILD-TYPE 370 202 91 77 32

Figure S351.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #3: 'CN_CNMF'

'del_5q11.2' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S352.  Gene #36: 'del_5q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 8(5Q11.2) MUTATED 99 16 30 9 32
DEL PEAK 8(5Q11.2) WILD-TYPE 33 181 147 79 96

Figure S352.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_5q11.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S353.  Gene #36: 'del_5q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 8(5Q11.2) MUTATED 80 12 23
DEL PEAK 8(5Q11.2) WILD-TYPE 69 120 94

Figure S353.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_5q11.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S354.  Gene #36: 'del_5q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 8(5Q11.2) MUTATED 4 14 64 23 10
DEL PEAK 8(5Q11.2) WILD-TYPE 60 92 26 84 21

Figure S354.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_5q11.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S355.  Gene #36: 'del_5q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 8(5Q11.2) MUTATED 137 8 18 55 44 4 5
DEL PEAK 8(5Q11.2) WILD-TYPE 53 135 216 106 200 48 11

Figure S355.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_5q11.2' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S356.  Gene #36: 'del_5q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 8(5Q11.2) MUTATED 134 19 10 54 29 25
DEL PEAK 8(5Q11.2) WILD-TYPE 44 224 187 126 155 33

Figure S356.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_5q11.2' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S357.  Gene #36: 'del_5q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 8(5Q11.2) MUTATED 23 59 178
DEL PEAK 8(5Q11.2) WILD-TYPE 283 363 119

Figure S357.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_5q11.2' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S358.  Gene #36: 'del_5q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 8(5Q11.2) MUTATED 7 19 71 105 58
DEL PEAK 8(5Q11.2) WILD-TYPE 167 167 334 29 68

Figure S358.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_5q11.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S359.  Gene #36: 'del_5q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 8(5Q11.2) MUTATED 37 18 131
DEL PEAK 8(5Q11.2) WILD-TYPE 212 238 78

Figure S359.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_5q11.2' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S360.  Gene #36: 'del_5q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 8(5Q11.2) MUTATED 93 6 33 21 4 29
DEL PEAK 8(5Q11.2) WILD-TYPE 34 61 160 114 121 38

Figure S360.  Get High-res Image Gene #36: 'del_5q11.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_5q21.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S361.  Gene #37: 'del_5q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 9(5Q21.3) MUTATED 2 5 19 71 7 24 5 2
DEL PEAK 9(5Q21.3) WILD-TYPE 19 31 100 25 102 48 15 38

Figure S361.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_5q21.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S362.  Gene #37: 'del_5q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 9(5Q21.3) MUTATED 18 13 36 66 2
DEL PEAK 9(5Q21.3) WILD-TYPE 83 139 78 22 56

Figure S362.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_5q21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S363.  Gene #37: 'del_5q21.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 9(5Q21.3) MUTATED 23 32 7 194 8
DEL PEAK 9(5Q21.3) WILD-TYPE 376 208 92 70 34

Figure S363.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_5q21.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S364.  Gene #37: 'del_5q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 9(5Q21.3) MUTATED 106 10 28 6 30
DEL PEAK 9(5Q21.3) WILD-TYPE 26 187 149 82 98

Figure S364.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_5q21.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S365.  Gene #37: 'del_5q21.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 9(5Q21.3) MUTATED 78 12 23
DEL PEAK 9(5Q21.3) WILD-TYPE 71 120 94

Figure S365.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_5q21.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S366.  Gene #37: 'del_5q21.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 9(5Q21.3) MUTATED 5 16 62 21 9
DEL PEAK 9(5Q21.3) WILD-TYPE 59 90 28 86 22

Figure S366.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_5q21.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S367.  Gene #37: 'del_5q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 9(5Q21.3) MUTATED 144 8 12 50 39 4 6
DEL PEAK 9(5Q21.3) WILD-TYPE 46 135 222 111 205 48 10

Figure S367.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_5q21.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S368.  Gene #37: 'del_5q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 9(5Q21.3) MUTATED 139 17 7 49 28 23
DEL PEAK 9(5Q21.3) WILD-TYPE 39 226 190 131 156 35

Figure S368.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_5q21.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S369.  Gene #37: 'del_5q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 9(5Q21.3) MUTATED 18 55 181
DEL PEAK 9(5Q21.3) WILD-TYPE 288 367 116

Figure S369.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_5q21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S370.  Gene #37: 'del_5q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 9(5Q21.3) MUTATED 5 14 68 109 58
DEL PEAK 9(5Q21.3) WILD-TYPE 169 172 337 25 68

Figure S370.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_5q21.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S371.  Gene #37: 'del_5q21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 9(5Q21.3) MUTATED 28 18 129
DEL PEAK 9(5Q21.3) WILD-TYPE 221 238 80

Figure S371.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_5q21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S372.  Gene #37: 'del_5q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 9(5Q21.3) MUTATED 97 6 28 14 3 27
DEL PEAK 9(5Q21.3) WILD-TYPE 30 61 165 121 122 40

Figure S372.  Get High-res Image Gene #37: 'del_5q21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6p25.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S373.  Gene #38: 'del_6p25.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 10(6P25.3) MUTATED 41 73 19 61 8
DEL PEAK 10(6P25.3) WILD-TYPE 358 167 80 203 34

Figure S373.  Get High-res Image Gene #38: 'del_6p25.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_6p25.3' versus 'MRNASEQ_CNMF'

P value = 0.00144 (Fisher's exact test), Q value = 0.23

Table S374.  Gene #38: 'del_6p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 10(6P25.3) MUTATED 45 15 41 29 64 6 1
DEL PEAK 10(6P25.3) WILD-TYPE 145 128 193 132 180 46 15

Figure S374.  Get High-res Image Gene #38: 'del_6p25.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_6p25.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00039 (Fisher's exact test), Q value = 0.074

Table S375.  Gene #38: 'del_6p25.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 10(6P25.3) MUTATED 31 5 55 22 16 14
DEL PEAK 10(6P25.3) WILD-TYPE 96 62 138 113 109 53

Figure S375.  Get High-res Image Gene #38: 'del_6p25.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q15' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S376.  Gene #39: 'del_6q15' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 11(6Q15) MUTATED 6 13 63 20 24 29 4 16
DEL PEAK 11(6Q15) WILD-TYPE 15 23 56 76 85 43 16 24

Figure S376.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_6q15' versus 'MRNA_CHIERARCHICAL'

P value = 0.00036 (Fisher's exact test), Q value = 0.069

Table S377.  Gene #39: 'del_6q15' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 11(6Q15) MUTATED 50 51 42 18 14
DEL PEAK 11(6Q15) WILD-TYPE 51 101 72 70 44

Figure S377.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_6q15' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S378.  Gene #39: 'del_6q15' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 11(6Q15) MUTATED 85 152 30 51 23
DEL PEAK 11(6Q15) WILD-TYPE 314 88 69 213 19

Figure S378.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #3: 'CN_CNMF'

'del_6q15' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S379.  Gene #39: 'del_6q15' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 11(6Q15) MUTATED 26 81 73 21 25
DEL PEAK 11(6Q15) WILD-TYPE 106 116 104 67 103

Figure S379.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_6q15' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S380.  Gene #39: 'del_6q15' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 11(6Q15) MUTATED 31 42 72 56 123 12 4
DEL PEAK 11(6Q15) WILD-TYPE 159 101 162 105 121 40 12

Figure S380.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_6q15' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S381.  Gene #39: 'del_6q15' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 11(6Q15) MUTATED 28 79 50 65 98 20
DEL PEAK 11(6Q15) WILD-TYPE 150 164 147 115 86 38

Figure S381.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_6q15' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S382.  Gene #39: 'del_6q15' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 11(6Q15) MUTATED 47 81 150 21 39
DEL PEAK 11(6Q15) WILD-TYPE 127 105 255 113 87

Figure S382.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_6q15' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S383.  Gene #39: 'del_6q15' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 11(6Q15) MUTATED 21 19 82 56 33 20
DEL PEAK 11(6Q15) WILD-TYPE 106 48 111 79 92 47

Figure S383.  Get High-res Image Gene #39: 'del_6q15' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_6q27' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S384.  Gene #40: 'del_6q27' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 12(6Q27) MUTATED 94 127 28 88 25
DEL PEAK 12(6Q27) WILD-TYPE 305 113 71 176 17

Figure S384.  Get High-res Image Gene #40: 'del_6q27' versus Molecular Subtype #3: 'CN_CNMF'

'del_6q27' versus 'MRNASEQ_CNMF'

P value = 0.00154 (Fisher's exact test), Q value = 0.24

Table S385.  Gene #40: 'del_6q27' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 12(6Q27) MUTATED 66 44 65 59 110 12 4
DEL PEAK 12(6Q27) WILD-TYPE 124 99 169 102 134 40 12

Figure S385.  Get High-res Image Gene #40: 'del_6q27' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_6q27' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00028 (Fisher's exact test), Q value = 0.055

Table S386.  Gene #40: 'del_6q27' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 12(6Q27) MUTATED 61 82 46 62 82 27
DEL PEAK 12(6Q27) WILD-TYPE 117 161 151 118 102 31

Figure S386.  Get High-res Image Gene #40: 'del_6q27' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_7p22.3' versus 'MRNA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S387.  Gene #41: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 13(7P22.3) MUTATED 4 3 24 25 2 12 2 4
DEL PEAK 13(7P22.3) WILD-TYPE 17 33 95 71 107 60 18 36

Figure S387.  Get High-res Image Gene #41: 'del_7p22.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_7p22.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S388.  Gene #41: 'del_7p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 13(7P22.3) MUTATED 20 8 22 24 2
DEL PEAK 13(7P22.3) WILD-TYPE 81 144 92 64 56

Figure S388.  Get High-res Image Gene #41: 'del_7p22.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_7p22.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S389.  Gene #41: 'del_7p22.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 13(7P22.3) MUTATED 12 51 4 65 2
DEL PEAK 13(7P22.3) WILD-TYPE 387 189 95 199 40

Figure S389.  Get High-res Image Gene #41: '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 = 0.0083

Table S390.  Gene #41: 'del_7p22.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 13(7P22.3) MUTATED 30 12 25 6 5
DEL PEAK 13(7P22.3) WILD-TYPE 102 185 152 82 123

Figure S390.  Get High-res Image Gene #41: '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 = 0.0083

Table S391.  Gene #41: 'del_7p22.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 13(7P22.3) MUTATED 49 6 11 27 37 1 1
DEL PEAK 13(7P22.3) WILD-TYPE 141 137 223 134 207 51 15

Figure S391.  Get High-res Image Gene #41: '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 = 0.0083

Table S392.  Gene #41: 'del_7p22.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 13(7P22.3) MUTATED 47 9 12 31 28 5
DEL PEAK 13(7P22.3) WILD-TYPE 131 234 185 149 156 53

Figure S392.  Get High-res Image Gene #41: '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 = 0.0083

Table S393.  Gene #41: 'del_7p22.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 13(7P22.3) MUTATED 8 55 67
DEL PEAK 13(7P22.3) WILD-TYPE 298 367 230

Figure S393.  Get High-res Image Gene #41: '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 = 0.0083

Table S394.  Gene #41: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 13(7P22.3) MUTATED 3 9 58 38 22
DEL PEAK 13(7P22.3) WILD-TYPE 171 177 347 96 104

Figure S394.  Get High-res Image Gene #41: 'del_7p22.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7p22.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S395.  Gene #41: 'del_7p22.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 13(7P22.3) MUTATED 22 12 43
DEL PEAK 13(7P22.3) WILD-TYPE 227 244 166

Figure S395.  Get High-res Image Gene #41: '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 = 0.0083

Table S396.  Gene #41: 'del_7p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 13(7P22.3) MUTATED 32 1 24 13 2 5
DEL PEAK 13(7P22.3) WILD-TYPE 95 66 169 122 123 62

Figure S396.  Get High-res Image Gene #41: 'del_7p22.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_7q36.1' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S397.  Gene #42: 'del_7q36.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 14(7Q36.1) MUTATED 16 17 45 17 7
DEL PEAK 14(7Q36.1) WILD-TYPE 85 135 69 71 51

Figure S397.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_7q36.1' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S398.  Gene #42: 'del_7q36.1' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 14(7Q36.1) MUTATED 37 65 13 74 6
DEL PEAK 14(7Q36.1) WILD-TYPE 362 175 86 190 36

Figure S398.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #3: 'CN_CNMF'

'del_7q36.1' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S399.  Gene #42: 'del_7q36.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 14(7Q36.1) MUTATED 44 15 31 52 45 4 2
DEL PEAK 14(7Q36.1) WILD-TYPE 146 128 203 109 199 48 14

Figure S399.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_7q36.1' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S400.  Gene #42: 'del_7q36.1' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 14(7Q36.1) MUTATED 38 28 23 48 38 18
DEL PEAK 14(7Q36.1) WILD-TYPE 140 215 174 132 146 40

Figure S400.  Get High-res Image Gene #42: '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 = 0.0083

Table S401.  Gene #42: 'del_7q36.1' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 14(7Q36.1) MUTATED 25 82 83
DEL PEAK 14(7Q36.1) WILD-TYPE 281 340 214

Figure S401.  Get High-res Image Gene #42: '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 = 0.0083

Table S402.  Gene #42: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 14(7Q36.1) MUTATED 11 24 88 29 38
DEL PEAK 14(7Q36.1) WILD-TYPE 163 162 317 105 88

Figure S402.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_7q36.1' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S403.  Gene #42: 'del_7q36.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 14(7Q36.1) MUTATED 46 22 60
DEL PEAK 14(7Q36.1) WILD-TYPE 203 234 149

Figure S403.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_7q36.1' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S404.  Gene #42: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 14(7Q36.1) MUTATED 33 7 43 20 5 20
DEL PEAK 14(7Q36.1) WILD-TYPE 94 60 150 115 120 47

Figure S404.  Get High-res Image Gene #42: 'del_7q36.1' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p23.2' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S405.  Gene #43: 'del_8p23.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 15(8P23.2) MUTATED 12 15 78 64 29 47 13 18
DEL PEAK 15(8P23.2) WILD-TYPE 9 21 41 32 80 25 7 22

Figure S405.  Get High-res Image Gene #43: 'del_8p23.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_8p23.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S406.  Gene #43: 'del_8p23.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 15(8P23.2) MUTATED 67 59 78 57 15
DEL PEAK 15(8P23.2) WILD-TYPE 34 93 36 31 43

Figure S406.  Get High-res Image Gene #43: '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 = 0.0083

Table S407.  Gene #43: 'del_8p23.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 15(8P23.2) MUTATED 128 169 26 185 34
DEL PEAK 15(8P23.2) WILD-TYPE 271 71 73 79 8

Figure S407.  Get High-res Image Gene #43: '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 = 0.0083

Table S408.  Gene #43: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 15(8P23.2) MUTATED 87 81 102 26 63
DEL PEAK 15(8P23.2) WILD-TYPE 45 116 75 62 65

Figure S408.  Get High-res Image Gene #43: 'del_8p23.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_8p23.2' versus 'RPPA_CHIERARCHICAL'

P value = 0.00074 (Fisher's exact test), Q value = 0.13

Table S409.  Gene #43: 'del_8p23.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 15(8P23.2) MUTATED 22 57 58 66 22
DEL PEAK 15(8P23.2) WILD-TYPE 42 49 32 41 9

Figure S409.  Get High-res Image Gene #43: 'del_8p23.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_8p23.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S410.  Gene #43: 'del_8p23.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 15(8P23.2) MUTATED 119 53 73 109 151 22 12
DEL PEAK 15(8P23.2) WILD-TYPE 71 90 161 52 93 30 4

Figure S410.  Get High-res Image Gene #43: '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 = 0.0083

Table S411.  Gene #43: 'del_8p23.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 15(8P23.2) MUTATED 112 95 51 119 115 47
DEL PEAK 15(8P23.2) WILD-TYPE 66 148 146 61 69 11

Figure S411.  Get High-res Image Gene #43: '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 = 0.0083

Table S412.  Gene #43: 'del_8p23.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 15(8P23.2) MUTATED 116 220 194
DEL PEAK 15(8P23.2) WILD-TYPE 190 202 103

Figure S412.  Get High-res Image Gene #43: '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 = 0.0083

Table S413.  Gene #43: 'del_8p23.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 15(8P23.2) MUTATED 55 85 215 86 89
DEL PEAK 15(8P23.2) WILD-TYPE 119 101 190 48 37

Figure S413.  Get High-res Image Gene #43: '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 = 0.0083

Table S414.  Gene #43: 'del_8p23.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 15(8P23.2) MUTATED 123 101 138
DEL PEAK 15(8P23.2) WILD-TYPE 126 155 71

Figure S414.  Get High-res Image Gene #43: '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 = 0.0083

Table S415.  Gene #43: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 15(8P23.2) MUTATED 81 21 95 73 42 50
DEL PEAK 15(8P23.2) WILD-TYPE 46 46 98 62 83 17

Figure S415.  Get High-res Image Gene #43: 'del_8p23.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_8p11.21' versus 'MRNA_CNMF'

P value = 1e-04 (Fisher's exact test), Q value = 0.021

Table S416.  Gene #44: 'del_8p11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 16(8P11.21) MUTATED 4 4 23 23 9 27 7 7
DEL PEAK 16(8P11.21) WILD-TYPE 17 32 96 73 100 45 13 33

Figure S416.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_8p11.21' versus 'MRNA_CHIERARCHICAL'

P value = 0.00026 (Fisher's exact test), Q value = 0.052

Table S417.  Gene #44: 'del_8p11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 16(8P11.21) MUTATED 21 20 37 21 5
DEL PEAK 16(8P11.21) WILD-TYPE 80 132 77 67 53

Figure S417.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_8p11.21' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S418.  Gene #44: 'del_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 16(8P11.21) MUTATED 45 56 13 84 1
DEL PEAK 16(8P11.21) WILD-TYPE 354 184 86 180 41

Figure S418.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #3: 'CN_CNMF'

'del_8p11.21' versus 'RPPA_CHIERARCHICAL'

P value = 0.00017 (Fisher's exact test), Q value = 0.035

Table S419.  Gene #44: 'del_8p11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 16(8P11.21) MUTATED 5 21 21 24 16
DEL PEAK 16(8P11.21) WILD-TYPE 59 85 69 83 15

Figure S419.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_8p11.21' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S420.  Gene #44: 'del_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 16(8P11.21) MUTATED 38 21 25 65 36 9 5
DEL PEAK 16(8P11.21) WILD-TYPE 152 122 209 96 208 43 11

Figure S420.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_8p11.21' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S421.  Gene #44: 'del_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 16(8P11.21) MUTATED 35 30 20 59 30 25
DEL PEAK 16(8P11.21) WILD-TYPE 143 213 177 121 154 33

Figure S421.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_8p11.21' versus 'MIRSEQ_CNMF'

P value = 3e-05 (Fisher's exact test), Q value = 0.0083

Table S422.  Gene #44: 'del_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 16(8P11.21) MUTATED 34 86 77
DEL PEAK 16(8P11.21) WILD-TYPE 272 336 220

Figure S422.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_8p11.21' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S423.  Gene #44: 'del_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 16(8P11.21) MUTATED 16 20 87 24 50
DEL PEAK 16(8P11.21) WILD-TYPE 158 166 318 110 76

Figure S423.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_8p11.21' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S424.  Gene #44: 'del_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 16(8P11.21) MUTATED 58 27 56
DEL PEAK 16(8P11.21) WILD-TYPE 191 229 153

Figure S424.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_8p11.21' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S425.  Gene #44: 'del_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 16(8P11.21) MUTATED 28 7 52 10 17 27
DEL PEAK 16(8P11.21) WILD-TYPE 99 60 141 125 108 40

Figure S425.  Get High-res Image Gene #44: 'del_8p11.21' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p23' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S426.  Gene #45: 'del_9p23' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 17(9P23) MUTATED 9 15 57 21 22 34 10 5
DEL PEAK 17(9P23) WILD-TYPE 12 21 62 75 87 38 10 35

Figure S426.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9p23' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S427.  Gene #45: 'del_9p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 17(9P23) MUTATED 49 36 61 17 10
DEL PEAK 17(9P23) WILD-TYPE 52 116 53 71 48

Figure S427.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9p23' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S428.  Gene #45: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 17(9P23) MUTATED 43 153 18 97 8
DEL PEAK 17(9P23) WILD-TYPE 356 87 81 167 34

Figure S428.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #3: 'CN_CNMF'

'del_9p23' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S429.  Gene #45: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 17(9P23) MUTATED 37 43 90 14 25
DEL PEAK 17(9P23) WILD-TYPE 95 154 87 74 103

Figure S429.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9p23' versus 'RPPA_CHIERARCHICAL'

P value = 0.00082 (Fisher's exact test), Q value = 0.14

Table S430.  Gene #45: 'del_9p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 17(9P23) MUTATED 15 31 26 53 15
DEL PEAK 17(9P23) WILD-TYPE 49 75 64 54 16

Figure S430.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_9p23' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S431.  Gene #45: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 17(9P23) MUTATED 41 26 43 74 118 9 8
DEL PEAK 17(9P23) WILD-TYPE 149 117 191 87 126 43 8

Figure S431.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9p23' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S432.  Gene #45: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 17(9P23) MUTATED 34 41 29 92 94 29
DEL PEAK 17(9P23) WILD-TYPE 144 202 168 88 90 29

Figure S432.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S433.  Gene #45: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 17(9P23) MUTATED 56 156 100
DEL PEAK 17(9P23) WILD-TYPE 250 266 197

Figure S433.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9p23' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S434.  Gene #45: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 17(9P23) MUTATED 17 50 161 21 63
DEL PEAK 17(9P23) WILD-TYPE 157 136 244 113 63

Figure S434.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9p23' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00012 (Fisher's exact test), Q value = 0.025

Table S435.  Gene #45: 'del_9p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 17(9P23) MUTATED 83 50 72
DEL PEAK 17(9P23) WILD-TYPE 166 206 137

Figure S435.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9p23' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S436.  Gene #45: 'del_9p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 17(9P23) MUTATED 28 8 75 42 14 38
DEL PEAK 17(9P23) WILD-TYPE 99 59 118 93 111 29

Figure S436.  Get High-res Image Gene #45: 'del_9p23' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9p21.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S437.  Gene #46: 'del_9p21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 18(9P21.3) MUTATED 9 12 62 33 24 38 8 6
DEL PEAK 18(9P21.3) WILD-TYPE 12 24 57 63 85 34 12 34

Figure S437.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9p21.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S438.  Gene #46: 'del_9p21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 18(9P21.3) MUTATED 53 34 65 28 12
DEL PEAK 18(9P21.3) WILD-TYPE 48 118 49 60 46

Figure S438.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9p21.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S439.  Gene #46: 'del_9p21.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 18(9P21.3) MUTATED 50 158 20 120 9
DEL PEAK 18(9P21.3) WILD-TYPE 349 82 79 144 33

Figure S439.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_9p21.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S440.  Gene #46: 'del_9p21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 18(9P21.3) MUTATED 51 49 86 14 28
DEL PEAK 18(9P21.3) WILD-TYPE 81 148 91 74 100

Figure S440.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9p21.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S441.  Gene #46: 'del_9p21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 18(9P21.3) MUTATED 66 25 47 78 123 9 7
DEL PEAK 18(9P21.3) WILD-TYPE 124 118 187 83 121 43 9

Figure S441.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9p21.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S442.  Gene #46: 'del_9p21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 18(9P21.3) MUTATED 60 39 34 94 97 31
DEL PEAK 18(9P21.3) WILD-TYPE 118 204 163 86 87 27

Figure S442.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9p21.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S443.  Gene #46: 'del_9p21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 18(9P21.3) MUTATED 55 169 123
DEL PEAK 18(9P21.3) WILD-TYPE 251 253 174

Figure S443.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9p21.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S444.  Gene #46: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 18(9P21.3) MUTATED 19 52 167 42 67
DEL PEAK 18(9P21.3) WILD-TYPE 155 134 238 92 59

Figure S444.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9p21.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.0083

Table S445.  Gene #46: 'del_9p21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 18(9P21.3) MUTATED 87 52 88
DEL PEAK 18(9P21.3) WILD-TYPE 162 204 121

Figure S445.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9p21.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S446.  Gene #46: 'del_9p21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 18(9P21.3) MUTATED 44 9 76 47 12 39
DEL PEAK 18(9P21.3) WILD-TYPE 83 58 117 88 113 28

Figure S446.  Get High-res Image Gene #46: 'del_9p21.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q21.11' versus 'MRNA_CNMF'

P value = 0.00115 (Fisher's exact test), Q value = 0.19

Table S447.  Gene #47: 'del_9q21.11' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 19(9Q21.11) MUTATED 5 6 42 41 24 27 7 5
DEL PEAK 19(9Q21.11) WILD-TYPE 16 30 77 55 85 45 13 35

Figure S447.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q21.11' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S448.  Gene #47: 'del_9q21.11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 19(9Q21.11) MUTATED 37 25 50 35 10
DEL PEAK 19(9Q21.11) WILD-TYPE 64 127 64 53 48

Figure S448.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_9q21.11' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S449.  Gene #47: 'del_9q21.11' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 19(9Q21.11) MUTATED 36 110 21 110 12
DEL PEAK 19(9Q21.11) WILD-TYPE 363 130 78 154 30

Figure S449.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #3: 'CN_CNMF'

'del_9q21.11' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S450.  Gene #47: 'del_9q21.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 19(9Q21.11) MUTATED 55 40 54 12 26
DEL PEAK 19(9Q21.11) WILD-TYPE 77 157 123 76 102

Figure S450.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q21.11' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S451.  Gene #47: 'del_9q21.11' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 19(9Q21.11) MUTATED 69 33 22
DEL PEAK 19(9Q21.11) WILD-TYPE 80 99 95

Figure S451.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q21.11' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S452.  Gene #47: 'del_9q21.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 19(9Q21.11) MUTATED 74 15 46 50 90 7 7
DEL PEAK 19(9Q21.11) WILD-TYPE 116 128 188 111 154 45 9

Figure S452.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_9q21.11' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S453.  Gene #47: 'del_9q21.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 19(9Q21.11) MUTATED 68 31 26 69 73 22
DEL PEAK 19(9Q21.11) WILD-TYPE 110 212 171 111 111 36

Figure S453.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_9q21.11' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S454.  Gene #47: 'del_9q21.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 19(9Q21.11) MUTATED 42 117 123
DEL PEAK 19(9Q21.11) WILD-TYPE 264 305 174

Figure S454.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_9q21.11' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S455.  Gene #47: 'del_9q21.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 19(9Q21.11) MUTATED 13 36 121 54 58
DEL PEAK 19(9Q21.11) WILD-TYPE 161 150 284 80 68

Figure S455.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q21.11' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S456.  Gene #47: 'del_9q21.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 19(9Q21.11) MUTATED 59 43 85
DEL PEAK 19(9Q21.11) WILD-TYPE 190 213 124

Figure S456.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_9q21.11' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S457.  Gene #47: 'del_9q21.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 19(9Q21.11) MUTATED 50 5 53 36 10 33
DEL PEAK 19(9Q21.11) WILD-TYPE 77 62 140 99 115 34

Figure S457.  Get High-res Image Gene #47: 'del_9q21.11' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_9q34.2' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S458.  Gene #48: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 20(9Q34.2) MUTATED 6 4 40 55 23 18 7 4
DEL PEAK 20(9Q34.2) WILD-TYPE 15 32 79 41 86 54 13 36

Figure S458.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_9q34.2' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S459.  Gene #48: 'del_9q34.2' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 20(9Q34.2) MUTATED 36 23 38 50 10
DEL PEAK 20(9Q34.2) WILD-TYPE 65 129 76 38 48

Figure S459.  Get High-res Image Gene #48: '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 = 0.0083

Table S460.  Gene #48: 'del_9q34.2' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 20(9Q34.2) MUTATED 25 98 17 141 12
DEL PEAK 20(9Q34.2) WILD-TYPE 374 142 82 123 30

Figure S460.  Get High-res Image Gene #48: '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 = 0.0083

Table S461.  Gene #48: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 20(9Q34.2) MUTATED 74 37 47 10 21
DEL PEAK 20(9Q34.2) WILD-TYPE 58 160 130 78 107

Figure S461.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_9q34.2' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S462.  Gene #48: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 20(9Q34.2) MUTATED 68 33 21
DEL PEAK 20(9Q34.2) WILD-TYPE 81 99 96

Figure S462.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_9q34.2' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S463.  Gene #48: 'del_9q34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 20(9Q34.2) MUTATED 12 20 50 37 3
DEL PEAK 20(9Q34.2) WILD-TYPE 52 86 40 70 28

Figure S463.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_9q34.2' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S464.  Gene #48: 'del_9q34.2' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 20(9Q34.2) MUTATED 107 10 45 37 82 4 7
DEL PEAK 20(9Q34.2) WILD-TYPE 83 133 189 124 162 48 9

Figure S464.  Get High-res Image Gene #48: '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 = 0.0083

Table S465.  Gene #48: 'del_9q34.2' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 20(9Q34.2) MUTATED 101 23 27 58 68 15
DEL PEAK 20(9Q34.2) WILD-TYPE 77 220 170 122 116 43

Figure S465.  Get High-res Image Gene #48: '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 = 0.0083

Table S466.  Gene #48: 'del_9q34.2' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 20(9Q34.2) MUTATED 34 108 142
DEL PEAK 20(9Q34.2) WILD-TYPE 272 314 155

Figure S466.  Get High-res Image Gene #48: '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 = 0.0083

Table S467.  Gene #48: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 20(9Q34.2) MUTATED 13 35 106 79 51
DEL PEAK 20(9Q34.2) WILD-TYPE 161 151 299 55 75

Figure S467.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_9q34.2' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S468.  Gene #48: 'del_9q34.2' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 20(9Q34.2) MUTATED 51 36 104
DEL PEAK 20(9Q34.2) WILD-TYPE 198 220 105

Figure S468.  Get High-res Image Gene #48: '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 = 0.0083

Table S469.  Gene #48: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 20(9Q34.2) MUTATED 72 5 49 29 10 26
DEL PEAK 20(9Q34.2) WILD-TYPE 55 62 144 106 115 41

Figure S469.  Get High-res Image Gene #48: 'del_9q34.2' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10q23.31' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S470.  Gene #49: 'del_10q23.31' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 21(10Q23.31) MUTATED 7 6 36 49 20 21 7 3
DEL PEAK 21(10Q23.31) WILD-TYPE 14 30 83 47 89 51 13 37

Figure S470.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_10q23.31' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S471.  Gene #49: 'del_10q23.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 21(10Q23.31) MUTATED 28 29 39 45 8
DEL PEAK 21(10Q23.31) WILD-TYPE 73 123 75 43 50

Figure S471.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_10q23.31' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S472.  Gene #49: 'del_10q23.31' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 21(10Q23.31) MUTATED 50 82 27 138 16
DEL PEAK 21(10Q23.31) WILD-TYPE 349 158 72 126 26

Figure S472.  Get High-res Image Gene #49: '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 = 0.0083

Table S473.  Gene #49: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 21(10Q23.31) MUTATED 76 40 65 17 26
DEL PEAK 21(10Q23.31) WILD-TYPE 56 157 112 71 102

Figure S473.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_10q23.31' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S474.  Gene #49: 'del_10q23.31' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 21(10Q23.31) MUTATED 68 30 20
DEL PEAK 21(10Q23.31) WILD-TYPE 81 102 97

Figure S474.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_10q23.31' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S475.  Gene #49: 'del_10q23.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 21(10Q23.31) MUTATED 12 17 45 34 10
DEL PEAK 21(10Q23.31) WILD-TYPE 52 89 45 73 21

Figure S475.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_10q23.31' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S476.  Gene #49: 'del_10q23.31' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 21(10Q23.31) MUTATED 99 23 41 62 80 4 2
DEL PEAK 21(10Q23.31) WILD-TYPE 91 120 193 99 164 48 14

Figure S476.  Get High-res Image Gene #49: '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 = 0.0083

Table S477.  Gene #49: 'del_10q23.31' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 21(10Q23.31) MUTATED 94 37 30 71 57 22
DEL PEAK 21(10Q23.31) WILD-TYPE 84 206 167 109 127 36

Figure S477.  Get High-res Image Gene #49: '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 = 0.0083

Table S478.  Gene #49: 'del_10q23.31' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 21(10Q23.31) MUTATED 64 104 136
DEL PEAK 21(10Q23.31) WILD-TYPE 242 318 161

Figure S478.  Get High-res Image Gene #49: '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 = 0.0083

Table S479.  Gene #49: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 21(10Q23.31) MUTATED 22 40 113 72 57
DEL PEAK 21(10Q23.31) WILD-TYPE 152 146 292 62 69

Figure S479.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_10q23.31' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S480.  Gene #49: 'del_10q23.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 21(10Q23.31) MUTATED 59 53 100
DEL PEAK 21(10Q23.31) WILD-TYPE 190 203 109

Figure S480.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_10q23.31' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S481.  Gene #49: 'del_10q23.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 21(10Q23.31) MUTATED 71 10 49 38 20 24
DEL PEAK 21(10Q23.31) WILD-TYPE 56 57 144 97 105 43

Figure S481.  Get High-res Image Gene #49: 'del_10q23.31' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_10q26.3' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S482.  Gene #50: 'del_10q26.3' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 22(10Q26.3) MUTATED 8 7 38 55 14 22 6 4
DEL PEAK 22(10Q26.3) WILD-TYPE 13 29 81 41 95 50 14 36

Figure S482.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_10q26.3' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S483.  Gene #50: 'del_10q26.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 22(10Q26.3) MUTATED 31 23 44 49 7
DEL PEAK 22(10Q26.3) WILD-TYPE 70 129 70 39 51

Figure S483.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'del_10q26.3' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S484.  Gene #50: 'del_10q26.3' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 399 240 99 264 42
DEL PEAK 22(10Q26.3) MUTATED 47 88 23 142 11
DEL PEAK 22(10Q26.3) WILD-TYPE 352 152 76 122 31

Figure S484.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #3: 'CN_CNMF'

'del_10q26.3' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S485.  Gene #50: 'del_10q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 197 177 88 128
DEL PEAK 22(10Q26.3) MUTATED 75 37 68 12 24
DEL PEAK 22(10Q26.3) WILD-TYPE 57 160 109 76 104

Figure S485.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'del_10q26.3' versus 'RPPA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S486.  Gene #50: 'del_10q26.3' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 149 132 117
DEL PEAK 22(10Q26.3) MUTATED 73 28 24
DEL PEAK 22(10Q26.3) WILD-TYPE 76 104 93

Figure S486.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #5: 'RPPA_CNMF'

'del_10q26.3' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S487.  Gene #50: 'del_10q26.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 64 106 90 107 31
DEL PEAK 22(10Q26.3) MUTATED 11 16 48 36 14
DEL PEAK 22(10Q26.3) WILD-TYPE 53 90 42 71 17

Figure S487.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'del_10q26.3' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S488.  Gene #50: 'del_10q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 190 143 234 161 244 52 16
DEL PEAK 22(10Q26.3) MUTATED 105 17 34 66 79 7 2
DEL PEAK 22(10Q26.3) WILD-TYPE 85 126 200 95 165 45 14

Figure S488.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'del_10q26.3' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S489.  Gene #50: 'del_10q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 178 243 197 180 184 58
DEL PEAK 22(10Q26.3) MUTATED 96 33 27 76 53 25
DEL PEAK 22(10Q26.3) WILD-TYPE 82 210 170 104 131 33

Figure S489.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'del_10q26.3' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S490.  Gene #50: 'del_10q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 306 422 297
DEL PEAK 22(10Q26.3) MUTATED 55 105 140
DEL PEAK 22(10Q26.3) WILD-TYPE 251 317 157

Figure S490.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'del_10q26.3' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S491.  Gene #50: 'del_10q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 174 186 405 134 126
DEL PEAK 22(10Q26.3) MUTATED 19 35 116 72 58
DEL PEAK 22(10Q26.3) WILD-TYPE 155 151 289 62 68

Figure S491.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'del_10q26.3' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S492.  Gene #50: 'del_10q26.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 249 256 209
DEL PEAK 22(10Q26.3) MUTATED 66 47 99
DEL PEAK 22(10Q26.3) WILD-TYPE 183 209 110

Figure S492.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'del_10q26.3' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S493.  Gene #50: 'del_10q26.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 127 67 193 135 125 67
DEL PEAK 22(10Q26.3) MUTATED 68 10 54 34 17 29
DEL PEAK 22(10Q26.3) WILD-TYPE 59 57 139 101 108 38

Figure S493.  Get High-res Image Gene #50: 'del_10q26.3' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'del_11p15.5' versus 'MRNA_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S494.  Gene #51: 'del_11p15.5' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 21 36 119 96 109 72 20 40
DEL PEAK 23(11P15.5) MUTATED 3 8 33 48 14 34 7 9
DEL PEAK 23(11P15.5) WILD-TYPE 18 28 86 48 95 38 13 31

Figure S494.  Get High-res Image Gene #51: 'del_11p15.5' versus Molecular Subtype #1: 'MRNA_CNMF'

'del_11p15.5' versus 'MRNA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.0083

Table S495.  Gene #51: 'del_11p15.5' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 101 152 114 88 58
DEL PEAK 23(11P15.5) MUTATED 24 32 50 42 8
DEL PEAK 23(11P15.5) WILD-TYPE 77 120 64