Breast Invasive Carcinoma: Correlation between copy number variation genes and molecular subtypes
(primary solid tumor cohort)
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Overview
Introduction

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

Summary

Testing the association between copy number variation of 64 peak regions and 10 molecular subtypes across 913 patients, 475 significant findings detected with Q value < 0.25.

  • Amp Peak 1(1p22.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 2(1q21.3) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Amp Peak 3(1q44) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.

  • Amp Peak 4(3p26.1) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 5(3q26.32) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 6(4q13.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 7(6p23) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 8(6q21) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 9(8p11.23) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • Amp Peak 10(8p11.21) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • Amp Peak 11(8q24.21) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 12(10p15.1) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 13(10q22.3) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 14(11p13) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 15(11q13.3) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • Amp Peak 16(11q14.1) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 17(12p13.33) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 18(12q15) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Amp Peak 19(13q12.3) cnvs correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Amp Peak 20(13q34) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 21(14q21.1) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Amp Peak 22(15q26.3) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 23(17q12) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 24(17q23.1) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Amp Peak 25(19q12) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 26(19q13.42) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Amp Peak 27(20q13.2) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 1(1p36.13) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CNMF'.

  • Del Peak 2(1p22.1) cnvs correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • Del Peak 3(2q37.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 4(3p14.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 5(4p16.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 6(4q35.2) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 7(5q11.2) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 8(5q21.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 9(6p25.3) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.

  • Del Peak 10(6q15) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 11(6q27) cnvs correlated to 'CN_CNMF'.

  • Del Peak 12(7p22.3) cnvs correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 13(7q36.1) cnvs correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 14(8p23.2) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 15(8p11.21) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 16(9p21.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 17(9q21.11) cnvs correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 18(10q23.31) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 19(10q26.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 20(11p15.5) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 21(11q13.1) cnvs correlated to 'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.

  • Del Peak 22(11q23.2) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • Del Peak 23(11q25) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.

  • Del Peak 24(12p13.1) cnvs correlated to 'CN_CNMF',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 25(12q24.21) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 26(13q14.2) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 27(14q24.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 28(15q13.1) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 29(16q24.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 30(17p12) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 31(17q21.31) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 32(18q23) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 33(19p13.3) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 34(19q13.32) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 35(20p13) cnvs correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • Del Peak 36(21q11.2) cnvs correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CNMF'.

  • Del Peak 37(22q13.32) cnvs correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 64 regions and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 475 significant findings detected.

Molecular
subtypes 		MRNA
CNMF 		MRNA
CHIERARCHICAL 		CN
CNMF 		METHLYATION
CNMF 		RPPA
CNMF 		RPPA
CHIERARCHICAL 		MRNASEQ
CNMF 		MRNASEQ
CHIERARCHICAL 		MIRSEQ
CNMF 		MIRSEQ
CHIERARCHICAL
nCNV (%) nWild-Type Chi-square test Fisher's exact test Chi-square test Chi-square test Fisher's exact test Fisher's exact test Chi-square test Fisher's exact test Fisher's exact test Fisher's exact test
Amp Peak 1(1p22 3) 208 (23%) 705 1.29e-13
(6.07e-11) 		6.67e-12
(2.95e-09) 		6.61e-18
(3.59e-15) 		1.95e-17
(1.05e-14) 		0.000139
(0.0294) 		1.28e-07
(4.27e-05) 		3.94e-21
(2.24e-18) 		5.27e-16
(2.72e-13) 		2.07e-14
(1.01e-11) 		2.72e-18
(1.49e-15)
Amp Peak 5(3q26 32) 288 (32%) 625 6.88e-11
(2.92e-08) 		7.83e-10
(3.14e-07) 		8.72e-36
(5.38e-33) 		8.01e-17
(4.22e-14) 		7.16e-07
(0.000218) 		2.92e-06
(0.000798) 		3.98e-22
(2.31e-19) 		1.15e-22
(6.71e-20) 		1.25e-16
(6.58e-14) 		2.39e-21
(1.37e-18)
Amp Peak 7(6p23) 243 (27%) 670 3.59e-07
(0.000113) 		1.92e-07
(6.29e-05) 		5.65e-34
(3.47e-31) 		2.44e-17
(1.3e-14) 		1.98e-06
(0.000549) 		8.42e-05
(0.0185) 		2.89e-15
(1.45e-12) 		2.14e-11
(9.34e-09) 		1.43e-18
(7.88e-16) 		3.7e-16
(1.92e-13)
Amp Peak 8(6q21) 170 (19%) 743 8.2e-14
(3.92e-11) 		4.54e-10
(1.83e-07) 		1.67e-39
(1.04e-36) 		4.11e-13
(1.9e-10) 		1.04e-08
(3.82e-06) 		4.64e-07
(0.000144) 		8.02e-21
(4.55e-18) 		1.42e-19
(7.9e-17) 		3.65e-21
(2.09e-18) 		3.35e-26
(1.98e-23)
Amp Peak 11(8q24 21) 584 (64%) 329 1.17e-16
(6.16e-14) 		2.62e-07
(8.44e-05) 		2.63e-43
(1.65e-40) 		1.7e-27
(1.02e-24) 		4.58e-08
(1.56e-05) 		9.36e-07
(0.00028) 		6.36e-33
(3.88e-30) 		1.06e-14
(5.27e-12) 		6e-24
(3.52e-21) 		3.16e-19
(1.75e-16)
Amp Peak 12(10p15 1) 258 (28%) 655 1.72e-21
(9.86e-19) 		1.06e-18
(5.8e-16) 		9.95e-35
(6.12e-32) 		1.93e-26
(1.15e-23) 		7e-11
(2.96e-08) 		2.33e-12
(1.05e-09) 		1.61e-31
(9.81e-29) 		2e-28
(1.21e-25) 		2.5e-27
(1.49e-24) 		9.07e-35
(5.59e-32)
Amp Peak 17(12p13 33) 238 (26%) 675 1.91e-12
(8.7e-10) 		2.53e-11
(1.1e-08) 		1.68e-28
(1.01e-25) 		7.29e-17
(3.85e-14) 		2.7e-08
(9.52e-06) 		2.37e-07
(7.65e-05) 		2.83e-20
(1.6e-17) 		3.02e-17
(1.61e-14) 		4.83e-22
(2.8e-19) 		4.56e-19
(2.52e-16)
Amp Peak 20(13q34) 159 (17%) 754 9.14e-10
(3.65e-07) 		5.78e-09
(2.18e-06) 		1.51e-17
(8.11e-15) 		1.33e-14
(6.54e-12) 		8.21e-06
(0.00211) 		5.1e-08
(1.73e-05) 		2.13e-17
(1.14e-14) 		6.84e-15
(3.41e-12) 		2.55e-15
(1.29e-12) 		1.27e-19
(7.08e-17)
Amp Peak 25(19q12) 233 (26%) 680 2.12e-12
(9.57e-10) 		9.11e-11
(3.84e-08) 		1.28e-21
(7.37e-19) 		4.2e-12
(1.88e-09) 		6.19e-07
(0.000189) 		9.68e-07
(0.000287) 		5.19e-18
(2.83e-15) 		4.69e-16
(2.43e-13) 		1.91e-12
(8.7e-10) 		1.31e-17
(7.08e-15)
Del Peak 3(2q37 3) 265 (29%) 648 1.39e-06
(0.000405) 		3.78e-08
(1.31e-05) 		1.57e-20
(8.91e-18) 		2.61e-10
(1.07e-07) 		1.03e-08
(3.79e-06) 		1.11e-07
(3.71e-05) 		2.57e-08
(9.09e-06) 		5.12e-09
(1.95e-06) 		2.5e-12
(1.12e-09) 		2.11e-07
(6.89e-05)
Del Peak 4(3p14 3) 278 (30%) 635 1.06e-10
(4.45e-08) 		3.11e-08
(1.09e-05) 		2.93e-33
(1.79e-30) 		5.78e-13
(2.65e-10) 		1.18e-09
(4.66e-07) 		5.21e-06
(0.00137) 		2.98e-19
(1.66e-16) 		9.74e-14
(4.64e-11) 		4.34e-20
(2.43e-17) 		1.06e-14
(5.28e-12)
Del Peak 5(4p16 3) 281 (31%) 632 5.63e-11
(2.41e-08) 		6.3e-12
(2.8e-09) 		1.98e-26
(1.17e-23) 		8.41e-13
(3.85e-10) 		4.6e-07
(0.000143) 		1.62e-06
(0.000465) 		3.81e-18
(2.08e-15) 		5.23e-21
(2.97e-18) 		5.59e-15
(2.8e-12) 		1.69e-15
(8.64e-13)
Del Peak 6(4q35 2) 283 (31%) 630 3.17e-06
(0.000856) 		9.81e-07
(0.00029) 		2.71e-37
(1.68e-34) 		1.66e-13
(7.76e-11) 		1.51e-08
(5.46e-06) 		1.78e-06
(0.000501) 		9.23e-18
(4.99e-15) 		2.1e-16
(1.1e-13) 		9.72e-16
(4.99e-13) 		2.43e-17
(1.3e-14)
Del Peak 7(5q11 2) 234 (26%) 679 1.17e-27
(7.03e-25) 		6.11e-25
(3.61e-22) 		5.91e-60
(3.78e-57) 		1.43e-39
(8.94e-37) 		3.33e-16
(1.73e-13) 		7.43e-19
(4.1e-16) 		1.4e-46
(8.87e-44) 		4.66e-44
(2.94e-41) 		5.18e-41
(3.24e-38) 		1.87e-49
(1.19e-46)
Del Peak 8(5q21 3) 225 (25%) 688 1.36e-29
(8.24e-27) 		1e-26
(5.96e-24) 		6.13e-70
(3.92e-67) 		3.25e-51
(2.07e-48) 		2.6e-15
(1.31e-12) 		8.97e-16
(4.61e-13) 		5.55e-54
(3.54e-51) 		8.19e-48
(5.19e-45) 		8.31e-41
(5.19e-38) 		6.9e-54
(4.39e-51)
Del Peak 18(10q23 31) 261 (29%) 652 4.09e-05
(0.00965) 		9.57e-05
(0.0208) 		3.83e-20
(2.15e-17) 		4.75e-12
(2.12e-09) 		1.9e-07
(6.23e-05) 		7.37e-05
(0.0165) 		5.67e-13
(2.61e-10) 		6.86e-09
(2.57e-06) 		4.31e-09
(1.65e-06) 		4.34e-09
(1.66e-06)
Del Peak 19(10q26 3) 264 (29%) 649 2.88e-08
(1.01e-05) 		1.49e-07
(4.93e-05) 		2.23e-22
(1.3e-19) 		2.07e-12
(9.36e-10) 		3.06e-08
(1.07e-05) 		8.25e-07
(0.000249) 		2.38e-15
(1.21e-12) 		9.81e-14
(4.66e-11) 		3.74e-13
(1.74e-10) 		4.77e-12
(2.12e-09)
Del Peak 20(11p15 5) 262 (29%) 651 1.34e-06
(0.000392) 		1.62e-07
(5.34e-05) 		5.01e-36
(3.1e-33) 		1.96e-12
(8.86e-10) 		1.27e-09
(5.02e-07) 		1.65e-06
(0.000469) 		1.13e-14
(5.57e-12) 		1.1e-13
(5.21e-11) 		3.25e-17
(1.73e-14) 		3.07e-17
(1.63e-14)
Del Peak 25(12q24 21) 174 (19%) 739 9.6e-11
(4.04e-08) 		2.5e-10
(1.03e-07) 		2.33e-15
(1.18e-12) 		2.68e-14
(1.3e-11) 		0.000209
(0.0427) 		1.05e-06
(0.000309) 		2.93e-13
(1.36e-10) 		6.62e-14
(3.18e-11) 		6.79e-11
(2.89e-08) 		1.5e-12
(6.82e-10)
Del Peak 27(14q24 3) 294 (32%) 619 4e-13
(1.85e-10) 		1.56e-08
(5.62e-06) 		8.6e-37
(5.32e-34) 		3.5e-14
(1.68e-11) 		5.29e-07
(0.000164) 		5.53e-06
(0.00144) 		1.13e-22
(6.58e-20) 		1.09e-13
(5.18e-11) 		1.32e-17
(7.11e-15) 		2.16e-20
(1.22e-17)
Del Peak 28(15q13 1) 315 (35%) 598 3.46e-07
(0.00011) 		7.57e-08
(2.56e-05) 		6.74e-31
(4.09e-28) 		1.2e-11
(5.27e-09) 		0.000193
(0.0397) 		2.32e-05
(0.00569) 		3.3e-14
(1.59e-11) 		3.47e-15
(1.74e-12) 		5.03e-16
(2.6e-13) 		1.01e-21
(5.79e-19)
Del Peak 29(16q24 3) 587 (64%) 326 1.6e-16
(8.4e-14) 		2.51e-14
(1.22e-11) 		1.66e-14
(8.13e-12) 		4.47e-13
(2.06e-10) 		1.14e-09
(4.53e-07) 		3.45e-11
(1.49e-08) 		3.6e-24
(2.12e-21) 		3.92e-21
(2.23e-18) 		9.18e-14
(4.38e-11) 		3.09e-20
(1.74e-17)
Del Peak 31(17q21 31) 315 (35%) 598 1.07e-14
(5.3e-12) 		3.91e-07
(0.000123) 		5.42e-22
(3.13e-19) 		1.19e-11
(5.26e-09) 		1.86e-11
(8.14e-09) 		3.12e-11
(1.35e-08) 		3.1e-33
(1.89e-30) 		5.94e-17
(3.14e-14) 		1.09e-14
(5.39e-12) 		1.69e-16
(8.85e-14)
Del Peak 33(19p13 3) 305 (33%) 608 5.99e-11
(2.56e-08) 		4.57e-08
(1.56e-05) 		1.25e-44
(7.9e-42) 		6.53e-18
(3.55e-15) 		3.03e-06
(0.000822) 		3.39e-05
(0.00807) 		6.34e-19
(3.5e-16) 		3.23e-13
(1.5e-10) 		7.8e-16
(4.01e-13) 		2.16e-14
(1.06e-11)
Del Peak 34(19q13 32) 183 (20%) 730 1.57e-06
(0.000451) 		8.8e-05
(0.0192) 		4.48e-20
(2.51e-17) 		1.52e-10
(6.33e-08) 		0.000783
(0.139) 		4.95e-05
(0.0114) 		4.12e-12
(1.84e-09) 		3.57e-11
(1.54e-08) 		1.58e-10
(6.55e-08) 		3.16e-08
(1.1e-05)
Amp Peak 27(20q13 2) 465 (51%) 448 1.35e-09
(5.3e-07) 		0.000278
(0.0548) 		9.78e-50
(6.21e-47) 		5.18e-25
(3.06e-22) 		0.000604
(0.113) 		0.0154
(1.00) 		1.54e-18
(8.44e-16) 		2.41e-08
(8.55e-06) 		2.22e-11
(9.68e-09) 		3.17e-08
(1.1e-05)
Amp Peak 6(4q13 3) 143 (16%) 770 5.63e-05
(0.0128) 		0.00023
(0.0465) 		7.87e-14
(3.77e-11) 		3.97e-07
(0.000124) 		0.0471
(1.00) 		0.524
(1.00) 		2.69e-10
(1.1e-07) 		3.84e-06
(0.00103) 		0.000614
(0.114) 		2.95e-07
(9.4e-05)
Amp Peak 22(15q26 3) 166 (18%) 747 3.31e-07
(0.000105) 		0.00679
(0.917) 		1.88e-15
(9.57e-13) 		0.000326
(0.063) 		0.000153
(0.032) 		0.0384
(1.00) 		1.43e-06
(0.000415) 		4.16e-06
(0.0011) 		2.75e-07
(8.79e-05) 		9.15e-10
(3.65e-07)
Del Peak 14(8p23 2) 481 (53%) 432 1.08e-09
(4.3e-07) 		2.53e-05
(0.00614) 		7.63e-31
(4.62e-28) 		1.19e-13
(5.61e-11) 		0.00955
(1.00) 		0.0341
(1.00) 		1.55e-19
(8.62e-17) 		1.41e-10
(5.9e-08) 		6.22e-08
(2.11e-05) 		2.37e-09
(9.23e-07)
Del Peak 16(9p21 3) 307 (34%) 606 2.43e-06
(0.000668) 		0.00076
(0.138) 		1.11e-29
(6.72e-27) 		2.21e-15
(1.12e-12) 		0.00341
(0.505) 		0.444
(1.00) 		8.21e-10
(3.28e-07) 		6.11e-09
(2.3e-06) 		7.71e-10
(3.1e-07) 		7.43e-05
(0.0166)
Del Peak 17(9q21 11) 246 (27%) 667 0.00255
(0.39) 		0.00029
(0.0565) 		3.41e-16
(1.78e-13) 		1.19e-10
(4.99e-08) 		1.04e-05
(0.00265) 		0.00653
(0.889) 		2.69e-06
(0.000736) 		2.33e-06
(0.000642) 		7.81e-09
(2.9e-06) 		1.56e-09
(6.13e-07)
Del Peak 26(13q14 2) 413 (45%) 500 2.15e-05
(0.00536) 		4.23e-05
(0.0099) 		7.07e-28
(4.24e-25) 		1.81e-08
(6.48e-06) 		0.538
(1.00) 		0.111
(1.00) 		1.14e-07
(3.8e-05) 		3.22e-08
(1.12e-05) 		1.21e-08
(4.42e-06) 		3.27e-05
(0.00785)
Del Peak 35(20p13) 134 (15%) 779 8.81e-06
(0.00226) 		0.000158
(0.0329) 		2.59e-13
(1.21e-10) 		7.15e-09
(2.67e-06) 		0.00154
(0.253) 		0.0119
(1.00) 		3.27e-11
(1.41e-08) 		2.43e-09
(9.45e-07) 		1.83e-11
(8.05e-09) 		3.16e-09
(1.22e-06)
Amp Peak 13(10q22 3) 132 (14%) 781 2.2e-05
(0.00542) 		0.0681
(1.00) 		8.18e-09
(3.02e-06) 		0.000149
(0.0313) 		0.0025
(0.386) 		0.0211
(1.00) 		2.66e-10
(1.09e-07) 		3.39e-05
(0.00807) 		6.57e-06
(0.0017) 		0.000205
(0.0421)
Amp Peak 18(12q15) 235 (26%) 678 1.81e-08
(6.48e-06) 		0.000131
(0.0278) 		1.86e-25
(1.1e-22) 		1.49e-13
(7e-11) 		0.188
(1.00) 		0.0652
(1.00) 		8.07e-09
(2.98e-06) 		4.51e-07
(0.000141) 		4.16e-09
(1.59e-06) 		0.186
(1.00)
Amp Peak 23(17q12) 295 (32%) 618 1.49e-14
(7.31e-12) 		0.0003
(0.0582) 		7.29e-34
(4.47e-31) 		5.76e-09
(2.18e-06) 		0.049
(1.00) 		0.00821
(1.00) 		5.06e-22
(2.93e-19) 		1.57e-05
(0.00394) 		0.00161
(0.264) 		0.000519
(0.098)
Amp Peak 24(17q23 1) 374 (41%) 539 2.42e-14
(1.18e-11) 		0.00149
(0.248) 		6.19e-38
(3.84e-35) 		1.45e-10
(6.04e-08) 		0.191
(1.00) 		0.334
(1.00) 		5.61e-22
(3.24e-19) 		6.48e-05
(0.0146) 		1.78e-06
(0.000501) 		0.056
(1.00)
Del Peak 1(1p36 13) 380 (42%) 533 3.27e-05
(0.00785) 		0.000651
(0.12) 		6.02e-32
(3.66e-29) 		2.81e-09
(1.09e-06) 		0.00726
(0.966) 		0.0805
(1.00) 		2.35e-07
(7.62e-05) 		3.4e-10
(1.39e-07) 		2.64e-11
(1.15e-08) 		0.0991
(1.00)
Del Peak 10(6q15) 301 (33%) 612 1.55e-06
(0.000446) 		0.00137
(0.229) 		6.83e-28
(4.1e-25) 		3.78e-08
(1.31e-05) 		0.456
(1.00) 		0.0875
(1.00) 		8.63e-08
(2.91e-05) 		2.52e-05
(0.00614) 		0.0358
(1.00) 		0.00125
(0.212)
Del Peak 12(7p22 3) 118 (13%) 795 0.00298
(0.453) 		0.000366
(0.0699) 		2.06e-15
(1.05e-12) 		5.89e-07
(0.000181) 		0.0214
(1.00) 		0.00553
(0.774) 		8.76e-07
(0.000263) 		7.9e-09
(2.93e-06) 		3.7e-10
(1.5e-07) 		4.01e-09
(1.54e-06)
Del Peak 30(17p12) 546 (60%) 367 2.14e-10
(8.84e-08) 		0.166
(1.00) 		9.33e-23
(5.47e-20) 		7.4e-07
(0.000224) 		8.07e-05
(0.0178) 		0.00775
(1.00) 		8.8e-18
(4.77e-15) 		0.0151
(1.00) 		1.45e-06
(0.000419) 		1.78e-06
(0.000501)
Del Peak 32(18q23) 293 (32%) 620 0.000347
(0.0667) 		0.149
(1.00) 		1.32e-15
(6.78e-13) 		1.2e-08
(4.38e-06) 		0.00413
(0.598) 		0.581
(1.00) 		3.96e-08
(1.36e-05) 		0.000848
(0.149) 		3.16e-05
(0.00762) 		0.00011
(0.0236)
Amp Peak 2(1q21 3) 659 (72%) 254 1.54e-07
(5.09e-05) 		0.00185
(0.299) 		6.45e-09
(2.42e-06) 		1.66e-06
(0.00047) 		0.0586
(1.00) 		0.00703
(0.942) 		9.72e-08
(3.27e-05) 		0.0012
(0.205) 		4.31e-05
(0.01) 		0.0043
(0.62)
Amp Peak 4(3p26 1) 188 (21%) 725 0.0124
(1.00) 		0.00803
(1.00) 		1.01e-13
(4.78e-11) 		2.95e-06
(0.000803) 		0.00573
(0.788) 		0.00869
(1.00) 		1.16e-05
(0.00293) 		2.71e-07
(8.69e-05) 		1.47e-08
(5.31e-06) 		5.44e-06
(0.00142)
Amp Peak 14(11p13) 192 (21%) 721 0.311
(1.00) 		0.148
(1.00) 		1.84e-10
(7.6e-08) 		4.84e-05
(0.0112) 		0.105
(1.00) 		0.229
(1.00) 		3.45e-06
(0.000924) 		0.0013
(0.218) 		4.18e-05
(0.00982) 		2.17e-05
(0.00537)
Amp Peak 16(11q14 1) 234 (26%) 679 0.12
(1.00) 		0.101
(1.00) 		1.8e-19
(1e-16) 		7.93e-06
(0.00205) 		0.148
(1.00) 		0.199
(1.00) 		7.1e-05
(0.016) 		5.79e-05
(0.0131) 		5.71e-07
(0.000176) 		0.000162
(0.0336)
Amp Peak 21(14q21 1) 181 (20%) 732 0.000259
(0.0513) 		0.00478
(0.678) 		1.97e-09
(7.68e-07) 		5.16e-05
(0.0118) 		0.0823
(1.00) 		0.0385
(1.00) 		2.13e-08
(7.59e-06) 		1.5e-05
(0.00378) 		0.000104
(0.0224) 		0.0261
(1.00)
Amp Peak 26(19q13 42) 235 (26%) 678 0.000775
(0.139) 		0.0212
(1.00) 		2.5e-14
(1.22e-11) 		6.23e-07
(0.00019) 		0.00233
(0.365) 		0.0549
(1.00) 		9.43e-07
(0.000281) 		0.012
(1.00) 		1.79e-05
(0.00448) 		0.000101
(0.0218)
Amp Peak 9(8p11 23) 346 (38%) 567 1.64e-06
(0.000468) 		0.00561
(0.78) 		1.44e-24
(8.46e-22) 		1.22e-12
(5.56e-10) 		0.0399
(1.00) 		0.00473
(0.676) 		3.07e-15
(1.54e-12) 		0.000237
(0.0476) 		0.128
(1.00) 		0.0264
(1.00)
Del Peak 2(1p22 1) 305 (33%) 608 0.00234
(0.365) 		8.39e-05
(0.0185) 		5.77e-22
(3.32e-19) 		0.00103
(0.179) 		0.0231
(1.00) 		0.049
(1.00) 		2.14e-07
(6.95e-05) 		1.43e-08
(5.19e-06) 		0.00781
(1.00) 		0.00331
(0.494)
Del Peak 13(7q36 1) 174 (19%) 739 0.0129
(1.00) 		0.043
(1.00) 		5.25e-10
(2.12e-07) 		0.0897
(1.00) 		0.551
(1.00) 		0.0562
(1.00) 		0.00128
(0.216) 		2.52e-05
(0.00614) 		5.22e-09
(1.98e-06) 		1.08e-06
(0.000317)
Del Peak 15(8p11 21) 173 (19%) 740 0.000126
(0.0268) 		0.0141
(1.00) 		6.19e-11
(2.64e-08) 		0.0474
(1.00) 		0.0465
(1.00) 		0.0191
(1.00) 		1.66e-09
(6.48e-07) 		0.000287
(0.0562) 		0.0223
(1.00) 		6.07e-06
(0.00158)
Del Peak 22(11q23 2) 449 (49%) 464 2.08e-08
(7.42e-06) 		0.0296
(1.00) 		3.22e-42
(2.02e-39) 		7.68e-12
(3.4e-09) 		0.975
(1.00) 		0.475
(1.00) 		1.24e-14
(6.14e-12) 		0.000718
(0.131) 		0.00349
(0.513) 		0.00201
(0.32)
Amp Peak 3(1q44) 655 (72%) 258 3.9e-06
(0.00104) 		0.263
(1.00) 		1.37e-07
(4.55e-05) 		9.22e-06
(0.00235) 		0.864
(1.00) 		0.324
(1.00) 		1.85e-06
(0.000516) 		0.424
(1.00) 		0.388
(1.00) 		0.631
(1.00)
Amp Peak 10(8p11 21) 354 (39%) 559 0.0144
(1.00) 		0.0422
(1.00) 		1.01e-22
(5.9e-20) 		4.03e-08
(1.38e-05) 		0.791
(1.00) 		0.633
(1.00) 		3.41e-10
(1.39e-07) 		0.000783
(0.139) 		0.0459
(1.00) 		0.219
(1.00)
Amp Peak 15(11q13 3) 349 (38%) 564 0.00319
(0.479) 		0.0336
(1.00) 		4.91e-41
(3.08e-38) 		4e-10
(1.62e-07) 		0.966
(1.00) 		0.146
(1.00) 		3.55e-07
(0.000112) 		0.000418
(0.0794) 		0.00174
(0.284) 		0.121
(1.00)
Amp Peak 19(13q12 3) 128 (14%) 785 0.0708
(1.00) 		0.0557
(1.00) 		2.22e-05
(0.00546) 		0.00895
(1.00) 		0.0155
(1.00) 		0.142
(1.00) 		0.00106
(0.183) 		0.000643
(0.119) 		3.26e-06
(0.000878) 		0.00518
(0.73)
Del Peak 23(11q25) 421 (46%) 492 0.000243
(0.0486) 		0.96
(1.00) 		6.15e-38
(3.83e-35) 		9.89e-09
(3.64e-06) 		0.126
(1.00) 		0.707
(1.00) 		3.49e-09
(1.34e-06) 		0.192
(1.00) 		0.0833
(1.00) 		0.438
(1.00)
Del Peak 36(21q11 2) 182 (20%) 731 0.000252
(0.0502) 		0.0342
(1.00) 		4.31e-11
(1.85e-08) 		2.01e-06
(0.000558) 		0.225
(1.00) 		0.502
(1.00) 		0.000587
(0.11) 		0.0202
(1.00) 		0.0163
(1.00) 		0.0704
(1.00)
Del Peak 9(6p25 3) 170 (19%) 743 0.318
(1.00) 		0.522
(1.00) 		8.51e-07
(0.000256) 		4.71e-05
(0.0109) 		0.439
(1.00) 		0.597
(1.00) 		0.000221
(0.0448) 		0.00571
(0.788) 		0.0538
(1.00) 		0.115
(1.00)
Del Peak 21(11q13 1) 194 (21%) 719 0.00185
(0.299) 		0.0584
(1.00) 		3.51e-17
(1.86e-14) 		4.39e-06
(0.00116) 		0.331
(1.00) 		0.393
(1.00) 		1.05e-06
(0.000309) 		0.00243
(0.377) 		0.336
(1.00) 		0.219
(1.00)
Del Peak 24(12p13 1) 157 (17%) 756 0.0439
(1.00) 		0.14
(1.00) 		0.000979
(0.17) 		0.0149
(1.00) 		0.222
(1.00) 		0.042
(1.00) 		0.00803
(1.00) 		0.00312
(0.472) 		0.000767
(0.138) 		7.62e-05
(0.0169)
Del Peak 37(22q13 32) 410 (45%) 503 0.164
(1.00) 		0.0438
(1.00) 		0.063
(1.00) 		0.000674
(0.123) 		0.121
(1.00) 		0.0218
(1.00) 		0.0223
(1.00) 		0.000923
(0.161) 		0.00229
(0.361) 		0.161
(1.00)
Del Peak 11(6q27) 314 (34%) 599 0.0183
(1.00) 		0.61
(1.00) 		2.87e-14
(1.38e-11) 		0.00375
(0.548) 		0.113
(1.00) 		0.796
(1.00) 		0.00188
(0.301) 		0.012
(1.00) 		0.151
(1.00) 		0.678
(1.00)
'Amp Peak 1(1p22.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.29e-13 (Chi-square test), Q value = 6.1e-11

Table S1.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 1(1P22.3) MUTATED 16 2 3 51 16 2 24 2
AMP PEAK 1(1P22.3) WILD-TYPE 108 34 20 44 56 18 79 38

Figure S1.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 6.67e-12 (Fisher's exact test), Q value = 3e-09

Table S2.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 1(1P22.3) MUTATED 13 57 46
AMP PEAK 1(1P22.3) WILD-TYPE 127 68 202

Figure S2.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 1(1p22.3) mutation analysis' versus 'CN_CNMF'

P value = 6.61e-18 (Chi-square test), Q value = 3.6e-15

Table S3.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 1(1P22.3) MUTATED 47 26 29 90 16
AMP PEAK 1(1P22.3) WILD-TYPE 300 196 43 133 33

Figure S3.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.95e-17 (Chi-square test), Q value = 1e-14

Table S4.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 1(1P22.3) MUTATED 57 21 22 17 2 17
AMP PEAK 1(1P22.3) WILD-TYPE 44 118 71 120 38 80

Figure S4.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000139 (Fisher's exact test), Q value = 0.029

Table S5.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 1(1P22.3) MUTATED 52 28 16
AMP PEAK 1(1P22.3) WILD-TYPE 95 105 101

Figure S5.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.28e-07 (Fisher's exact test), Q value = 4.3e-05

Table S6.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 1(1P22.3) MUTATED 32 12 52
AMP PEAK 1(1P22.3) WILD-TYPE 129 98 74

Figure S6.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 1(1p22.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.94e-21 (Chi-square test), Q value = 2.2e-18

Table S7.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 1(1P22.3) MUTATED 79 9 15 24 23 1 29 2
AMP PEAK 1(1P22.3) WILD-TYPE 67 70 85 107 155 11 122 29

Figure S7.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5.27e-16 (Fisher's exact test), Q value = 2.7e-13

Table S8.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 1(1P22.3) MUTATED 59 89 34
AMP PEAK 1(1P22.3) WILD-TYPE 277 116 253

Figure S8.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 1(1p22.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.07e-14 (Fisher's exact test), Q value = 1e-11

Table S9.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 1(1P22.3) MUTATED 33 65 103
AMP PEAK 1(1P22.3) WILD-TYPE 168 364 146

Figure S9.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 1(1p22.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.72e-18 (Fisher's exact test), Q value = 1.5e-15

Table S10.  Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 1(1P22.3) MUTATED 96 94 11
AMP PEAK 1(1P22.3) WILD-TYPE 108 522 48

Figure S10.  Get High-res Image Gene #1: 'Amp Peak 1(1p22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 2(1q21.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.54e-07 (Chi-square test), Q value = 5.1e-05

Table S11.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 2(1Q21.3) MUTATED 77 19 16 88 54 10 85 30
AMP PEAK 2(1Q21.3) WILD-TYPE 47 17 7 7 18 10 18 10

Figure S11.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 2(1q21.3) mutation analysis' versus 'CN_CNMF'

P value = 6.45e-09 (Chi-square test), Q value = 2.4e-06

Table S12.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 2(1Q21.3) MUTATED 219 167 72 167 34
AMP PEAK 2(1Q21.3) WILD-TYPE 128 55 0 56 15

Figure S12.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 2(1q21.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.66e-06 (Chi-square test), Q value = 0.00047

Table S13.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 2(1Q21.3) MUTATED 85 110 74 90 21 55
AMP PEAK 2(1Q21.3) WILD-TYPE 16 29 19 47 19 42

Figure S13.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 2(1q21.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 9.72e-08 (Chi-square test), Q value = 3.3e-05

Table S14.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 2(1Q21.3) MUTATED 126 47 64 98 110 8 126 19
AMP PEAK 2(1Q21.3) WILD-TYPE 20 32 36 33 68 4 25 12

Figure S14.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 2(1q21.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0012 (Fisher's exact test), Q value = 0.2

Table S15.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 2(1Q21.3) MUTATED 239 167 192
AMP PEAK 2(1Q21.3) WILD-TYPE 97 38 95

Figure S15.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 2(1q21.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.31e-05 (Fisher's exact test), Q value = 0.01

Table S16.  Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 2(1Q21.3) MUTATED 131 298 205
AMP PEAK 2(1Q21.3) WILD-TYPE 70 131 44

Figure S16.  Get High-res Image Gene #2: 'Amp Peak 2(1q21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 3(1q44) mutation analysis' versus 'MRNA_CNMF'

P value = 3.9e-06 (Chi-square test), Q value = 0.001

Table S17.  Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 3(1Q44) MUTATED 72 19 16 78 57 11 86 33
AMP PEAK 3(1Q44) WILD-TYPE 52 17 7 17 15 9 17 7

Figure S17.  Get High-res Image Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 3(1q44) mutation analysis' versus 'CN_CNMF'

P value = 1.37e-07 (Chi-square test), Q value = 4.6e-05

Table S18.  Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 3(1Q44) MUTATED 226 165 72 160 32
AMP PEAK 3(1Q44) WILD-TYPE 121 57 0 63 17

Figure S18.  Get High-res Image Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 3(1q44) mutation analysis' versus 'METHLYATION_CNMF'

P value = 9.22e-06 (Chi-square test), Q value = 0.0024

Table S19.  Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 3(1Q44) MUTATED 74 113 79 85 24 57
AMP PEAK 3(1Q44) WILD-TYPE 27 26 14 52 16 40

Figure S19.  Get High-res Image Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 3(1q44) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.85e-06 (Chi-square test), Q value = 0.00052

Table S20.  Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 3(1Q44) MUTATED 115 51 67 102 102 9 126 25
AMP PEAK 3(1Q44) WILD-TYPE 31 28 33 29 76 3 25 6

Figure S20.  Get High-res Image Gene #3: 'Amp Peak 3(1q44) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 4(3p26.1) mutation analysis' versus 'CN_CNMF'

P value = 1.01e-13 (Chi-square test), Q value = 4.8e-11

Table S21.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 4(3P26.1) MUTATED 25 55 20 75 13
AMP PEAK 4(3P26.1) WILD-TYPE 322 167 52 148 36

Figure S21.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 4(3p26.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.95e-06 (Chi-square test), Q value = 8e-04

Table S22.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 4(3P26.1) MUTATED 31 9 22 30 3 11
AMP PEAK 4(3P26.1) WILD-TYPE 70 130 71 107 37 86

Figure S22.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 4(3p26.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.16e-05 (Chi-square test), Q value = 0.0029

Table S23.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 4(3P26.1) MUTATED 44 6 18 39 43 4 19 2
AMP PEAK 4(3P26.1) WILD-TYPE 102 73 82 92 135 8 132 29

Figure S23.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 4(3p26.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.71e-07 (Fisher's exact test), Q value = 8.7e-05

Table S24.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 4(3P26.1) MUTATED 82 61 32
AMP PEAK 4(3P26.1) WILD-TYPE 254 144 255

Figure S24.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 4(3p26.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.47e-08 (Fisher's exact test), Q value = 5.3e-06

Table S25.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 4(3P26.1) MUTATED 23 72 82
AMP PEAK 4(3P26.1) WILD-TYPE 178 357 167

Figure S25.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 4(3p26.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 5.44e-06 (Fisher's exact test), Q value = 0.0014

Table S26.  Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 4(3P26.1) MUTATED 64 97 16
AMP PEAK 4(3P26.1) WILD-TYPE 140 519 43

Figure S26.  Get High-res Image Gene #4: 'Amp Peak 4(3p26.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MRNA_CNMF'

P value = 6.88e-11 (Chi-square test), Q value = 2.9e-08

Table S27.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 5(3Q26.32) MUTATED 39 11 4 58 34 9 19 4
AMP PEAK 5(3Q26.32) WILD-TYPE 85 25 19 37 38 11 84 36

Figure S27.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 7.83e-10 (Fisher's exact test), Q value = 3.1e-07

Table S28.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 5(3Q26.32) MUTATED 27 71 80
AMP PEAK 5(3Q26.32) WILD-TYPE 113 54 168

Figure S28.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 5(3q26.32) mutation analysis' versus 'CN_CNMF'

P value = 8.72e-36 (Chi-square test), Q value = 5.4e-33

Table S29.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 5(3Q26.32) MUTATED 35 77 24 138 14
AMP PEAK 5(3Q26.32) WILD-TYPE 312 145 48 85 35

Figure S29.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'METHLYATION_CNMF'

P value = 8.01e-17 (Chi-square test), Q value = 4.2e-14

Table S30.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 5(3Q26.32) MUTATED 63 15 29 41 9 17
AMP PEAK 5(3Q26.32) WILD-TYPE 38 124 64 96 31 80

Figure S30.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'RPPA_CNMF'

P value = 7.16e-07 (Fisher's exact test), Q value = 0.00022

Table S31.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 5(3Q26.32) MUTATED 76 35 28
AMP PEAK 5(3Q26.32) WILD-TYPE 71 98 89

Figure S31.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 2.92e-06 (Fisher's exact test), Q value = 8e-04

Table S32.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 5(3Q26.32) MUTATED 48 25 66
AMP PEAK 5(3Q26.32) WILD-TYPE 113 85 60

Figure S32.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.98e-22 (Chi-square test), Q value = 2.3e-19

Table S33.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 5(3Q26.32) MUTATED 96 12 30 54 48 6 24 4
AMP PEAK 5(3Q26.32) WILD-TYPE 50 67 70 77 130 6 127 27

Figure S33.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.15e-22 (Fisher's exact test), Q value = 6.7e-20

Table S34.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 5(3Q26.32) MUTATED 105 122 47
AMP PEAK 5(3Q26.32) WILD-TYPE 231 83 240

Figure S34.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.25e-16 (Fisher's exact test), Q value = 6.6e-14

Table S35.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 5(3Q26.32) MUTATED 45 100 133
AMP PEAK 5(3Q26.32) WILD-TYPE 156 329 116

Figure S35.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 5(3q26.32) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.39e-21 (Fisher's exact test), Q value = 1.4e-18

Table S36.  Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 5(3Q26.32) MUTATED 121 136 21
AMP PEAK 5(3Q26.32) WILD-TYPE 83 480 38

Figure S36.  Get High-res Image Gene #5: 'Amp Peak 5(3q26.32) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MRNA_CNMF'

P value = 5.63e-05 (Chi-square test), Q value = 0.013

Table S37.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 6(4Q13.3) MUTATED 31 2 3 19 18 4 3 3
AMP PEAK 6(4Q13.3) WILD-TYPE 93 34 20 76 54 16 100 37

Figure S37.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.00023 (Fisher's exact test), Q value = 0.046

Table S38.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 6(4Q13.3) MUTATED 9 29 45
AMP PEAK 6(4Q13.3) WILD-TYPE 131 96 203

Figure S38.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 6(4q13.3) mutation analysis' versus 'CN_CNMF'

P value = 7.87e-14 (Chi-square test), Q value = 3.8e-11

Table S39.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 6(4Q13.3) MUTATED 21 59 2 55 6
AMP PEAK 6(4Q13.3) WILD-TYPE 326 163 70 168 43

Figure S39.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 6(4q13.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 3.97e-07 (Chi-square test), Q value = 0.00012

Table S40.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 6(4Q13.3) MUTATED 24 4 11 34 4 9
AMP PEAK 6(4Q13.3) WILD-TYPE 77 135 82 103 36 88

Figure S40.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.69e-10 (Chi-square test), Q value = 1.1e-07

Table S41.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 6(4Q13.3) MUTATED 32 4 14 32 48 3 3 1
AMP PEAK 6(4Q13.3) WILD-TYPE 114 75 86 99 130 9 148 30

Figure S41.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.84e-06 (Fisher's exact test), Q value = 0.001

Table S42.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 6(4Q13.3) MUTATED 58 53 26
AMP PEAK 6(4Q13.3) WILD-TYPE 278 152 261

Figure S42.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 0.000614 (Fisher's exact test), Q value = 0.11

Table S43.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 6(4Q13.3) MUTATED 26 55 59
AMP PEAK 6(4Q13.3) WILD-TYPE 175 374 190

Figure S43.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 6(4q13.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.95e-07 (Fisher's exact test), Q value = 9.4e-05

Table S44.  Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 6(4Q13.3) MUTATED 57 71 12
AMP PEAK 6(4Q13.3) WILD-TYPE 147 545 47

Figure S44.  Get High-res Image Gene #6: 'Amp Peak 6(4q13.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 7(6p23) mutation analysis' versus 'MRNA_CNMF'

P value = 3.59e-07 (Chi-square test), Q value = 0.00011

Table S45.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 7(6P23) MUTATED 30 6 3 48 27 8 18 6
AMP PEAK 7(6P23) WILD-TYPE 94 30 20 47 45 12 85 34

Figure S45.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1.92e-07 (Fisher's exact test), Q value = 6.3e-05

Table S46.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 7(6P23) MUTATED 22 58 66
AMP PEAK 7(6P23) WILD-TYPE 118 67 182

Figure S46.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 7(6p23) mutation analysis' versus 'CN_CNMF'

P value = 5.65e-34 (Chi-square test), Q value = 3.5e-31

Table S47.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 7(6P23) MUTATED 25 57 21 123 17
AMP PEAK 7(6P23) WILD-TYPE 322 165 51 100 32

Figure S47.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.44e-17 (Chi-square test), Q value = 1.3e-14

Table S48.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 7(6P23) MUTATED 54 11 22 48 2 14
AMP PEAK 7(6P23) WILD-TYPE 47 128 71 89 38 83

Figure S48.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'RPPA_CNMF'

P value = 1.98e-06 (Fisher's exact test), Q value = 0.00055

Table S49.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 7(6P23) MUTATED 64 25 23
AMP PEAK 7(6P23) WILD-TYPE 83 108 94

Figure S49.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 8.42e-05 (Fisher's exact test), Q value = 0.018

Table S50.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 7(6P23) MUTATED 34 24 54
AMP PEAK 7(6P23) WILD-TYPE 127 86 72

Figure S50.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 7(6p23) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.89e-15 (Chi-square test), Q value = 1.5e-12

Table S51.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 7(6P23) MUTATED 75 11 23 43 46 6 14 5
AMP PEAK 7(6P23) WILD-TYPE 71 68 77 88 132 6 137 26

Figure S51.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.14e-11 (Fisher's exact test), Q value = 9.3e-09

Table S52.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 7(6P23) MUTATED 89 90 44
AMP PEAK 7(6P23) WILD-TYPE 247 115 243

Figure S52.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 7(6p23) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.43e-18 (Fisher's exact test), Q value = 7.9e-16

Table S53.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 7(6P23) MUTATED 30 77 118
AMP PEAK 7(6P23) WILD-TYPE 171 352 131

Figure S53.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 7(6p23) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.7e-16 (Fisher's exact test), Q value = 1.9e-13

Table S54.  Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 7(6P23) MUTATED 97 108 20
AMP PEAK 7(6P23) WILD-TYPE 107 508 39

Figure S54.  Get High-res Image Gene #7: 'Amp Peak 7(6p23) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 8(6q21) mutation analysis' versus 'MRNA_CNMF'

P value = 8.2e-14 (Chi-square test), Q value = 3.9e-11

Table S55.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 8(6Q21) MUTATED 11 1 4 41 25 9 11 2
AMP PEAK 8(6Q21) WILD-TYPE 113 35 19 54 47 11 92 38

Figure S55.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 4.54e-10 (Fisher's exact test), Q value = 1.8e-07

Table S56.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 8(6Q21) MUTATED 11 50 43
AMP PEAK 8(6Q21) WILD-TYPE 129 75 205

Figure S56.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 8(6q21) mutation analysis' versus 'CN_CNMF'

P value = 1.67e-39 (Chi-square test), Q value = 1e-36

Table S57.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 8(6Q21) MUTATED 20 20 15 109 6
AMP PEAK 8(6Q21) WILD-TYPE 327 202 57 114 43

Figure S57.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.11e-13 (Chi-square test), Q value = 1.9e-10

Table S58.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 8(6Q21) MUTATED 42 5 16 19 2 17
AMP PEAK 8(6Q21) WILD-TYPE 59 134 77 118 38 80

Figure S58.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'RPPA_CNMF'

P value = 1.04e-08 (Fisher's exact test), Q value = 3.8e-06

Table S59.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 8(6Q21) MUTATED 54 12 16
AMP PEAK 8(6Q21) WILD-TYPE 93 121 101

Figure S59.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 4.64e-07 (Fisher's exact test), Q value = 0.00014

Table S60.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 8(6Q21) MUTATED 20 15 47
AMP PEAK 8(6Q21) WILD-TYPE 141 95 79

Figure S60.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 8(6q21) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.02e-21 (Chi-square test), Q value = 4.5e-18

Table S61.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 8(6Q21) MUTATED 61 5 17 41 18 5 6 2
AMP PEAK 8(6Q21) WILD-TYPE 85 74 83 90 160 7 145 29

Figure S61.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.42e-19 (Fisher's exact test), Q value = 7.9e-17

Table S62.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 8(6Q21) MUTATED 52 83 20
AMP PEAK 8(6Q21) WILD-TYPE 284 122 267

Figure S62.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 8(6q21) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.65e-21 (Fisher's exact test), Q value = 2.1e-18

Table S63.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 8(6Q21) MUTATED 24 37 96
AMP PEAK 8(6Q21) WILD-TYPE 177 392 153

Figure S63.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 8(6q21) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.35e-26 (Fisher's exact test), Q value = 2e-23

Table S64.  Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 8(6Q21) MUTATED 88 53 16
AMP PEAK 8(6Q21) WILD-TYPE 116 563 43

Figure S64.  Get High-res Image Gene #8: 'Amp Peak 8(6q21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 9(8p11.23) mutation analysis' versus 'MRNA_CNMF'

P value = 1.64e-06 (Chi-square test), Q value = 0.00047

Table S65.  Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 9(8P11.23) MUTATED 76 17 12 30 23 5 34 9
AMP PEAK 9(8P11.23) WILD-TYPE 48 19 11 65 49 15 69 31

Figure S65.  Get High-res Image Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 9(8p11.23) mutation analysis' versus 'CN_CNMF'

P value = 1.44e-24 (Chi-square test), Q value = 8.5e-22

Table S66.  Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 9(8P11.23) MUTATED 94 111 32 61 48
AMP PEAK 9(8P11.23) WILD-TYPE 253 111 40 162 1

Figure S66.  Get High-res Image Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 9(8p11.23) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.22e-12 (Chi-square test), Q value = 5.6e-10

Table S67.  Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 9(8P11.23) MUTATED 32 28 37 88 12 29
AMP PEAK 9(8P11.23) WILD-TYPE 69 111 56 49 28 68

Figure S67.  Get High-res Image Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 9(8p11.23) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.07e-15 (Chi-square test), Q value = 1.5e-12

Table S68.  Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 9(8P11.23) MUTATED 48 27 55 39 111 4 33 6
AMP PEAK 9(8P11.23) WILD-TYPE 98 52 45 92 67 8 118 25

Figure S68.  Get High-res Image Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 9(8p11.23) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000237 (Fisher's exact test), Q value = 0.048

Table S69.  Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 9(8P11.23) MUTATED 159 65 99
AMP PEAK 9(8P11.23) WILD-TYPE 177 140 188

Figure S69.  Get High-res Image Gene #9: 'Amp Peak 9(8p11.23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 10(8p11.21) mutation analysis' versus 'CN_CNMF'

P value = 1.01e-22 (Chi-square test), Q value = 5.9e-20

Table S70.  Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 10(8P11.21) MUTATED 91 94 39 81 49
AMP PEAK 10(8P11.21) WILD-TYPE 256 128 33 142 0

Figure S70.  Get High-res Image Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 10(8p11.21) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.03e-08 (Chi-square test), Q value = 1.4e-05

Table S71.  Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 10(8P11.21) MUTATED 51 29 35 74 10 32
AMP PEAK 10(8P11.21) WILD-TYPE 50 110 58 63 30 65

Figure S71.  Get High-res Image Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 10(8p11.21) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.41e-10 (Chi-square test), Q value = 1.4e-07

Table S72.  Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 10(8P11.21) MUTATED 72 22 55 39 92 4 37 5
AMP PEAK 10(8P11.21) WILD-TYPE 74 57 45 92 86 8 114 26

Figure S72.  Get High-res Image Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 10(8p11.21) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000783 (Fisher's exact test), Q value = 0.14

Table S73.  Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 10(8P11.21) MUTATED 150 88 88
AMP PEAK 10(8P11.21) WILD-TYPE 186 117 199

Figure S73.  Get High-res Image Gene #10: 'Amp Peak 10(8p11.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MRNA_CNMF'

P value = 1.17e-16 (Chi-square test), Q value = 6.2e-14

Table S74.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 11(8Q24.21) MUTATED 101 21 17 83 56 17 42 14
AMP PEAK 11(8Q24.21) WILD-TYPE 23 15 6 12 16 3 61 26

Figure S74.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 2.62e-07 (Fisher's exact test), Q value = 8.4e-05

Table S75.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 11(8Q24.21) MUTATED 73 104 174
AMP PEAK 11(8Q24.21) WILD-TYPE 67 21 74

Figure S75.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 11(8q24.21) mutation analysis' versus 'CN_CNMF'

P value = 2.63e-43 (Chi-square test), Q value = 1.7e-40

Table S76.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 11(8Q24.21) MUTATED 132 163 39 203 47
AMP PEAK 11(8Q24.21) WILD-TYPE 215 59 33 20 2

Figure S76.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.7e-27 (Chi-square test), Q value = 1e-24

Table S77.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 11(8Q24.21) MUTATED 91 36 62 108 17 50
AMP PEAK 11(8Q24.21) WILD-TYPE 10 103 31 29 23 47

Figure S77.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'RPPA_CNMF'

P value = 4.58e-08 (Fisher's exact test), Q value = 1.6e-05

Table S78.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 11(8Q24.21) MUTATED 125 72 76
AMP PEAK 11(8Q24.21) WILD-TYPE 22 61 41

Figure S78.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 9.36e-07 (Fisher's exact test), Q value = 0.00028

Table S79.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 11(8Q24.21) MUTATED 102 63 108
AMP PEAK 11(8Q24.21) WILD-TYPE 59 47 18

Figure S79.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 6.36e-33 (Chi-square test), Q value = 3.9e-30

Table S80.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 11(8Q24.21) MUTATED 128 36 79 95 136 10 43 12
AMP PEAK 11(8Q24.21) WILD-TYPE 18 43 21 36 42 2 108 19

Figure S80.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.06e-14 (Fisher's exact test), Q value = 5.3e-12

Table S81.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 11(8Q24.21) MUTATED 224 172 143
AMP PEAK 11(8Q24.21) WILD-TYPE 112 33 144

Figure S81.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 6e-24 (Fisher's exact test), Q value = 3.5e-21

Table S82.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 11(8Q24.21) MUTATED 98 245 221
AMP PEAK 11(8Q24.21) WILD-TYPE 103 184 28

Figure S82.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 11(8q24.21) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.16e-19 (Fisher's exact test), Q value = 1.8e-16

Table S83.  Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 11(8Q24.21) MUTATED 179 339 46
AMP PEAK 11(8Q24.21) WILD-TYPE 25 277 13

Figure S83.  Get High-res Image Gene #11: 'Amp Peak 11(8q24.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MRNA_CNMF'

P value = 1.72e-21 (Chi-square test), Q value = 9.9e-19

Table S84.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 12(10P15.1) MUTATED 28 4 4 67 34 6 11 7
AMP PEAK 12(10P15.1) WILD-TYPE 96 32 19 28 38 14 92 33

Figure S84.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1.06e-18 (Fisher's exact test), Q value = 5.8e-16

Table S85.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 12(10P15.1) MUTATED 24 81 56
AMP PEAK 12(10P15.1) WILD-TYPE 116 44 192

Figure S85.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 12(10p15.1) mutation analysis' versus 'CN_CNMF'

P value = 9.95e-35 (Chi-square test), Q value = 6.1e-32

Table S86.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 12(10P15.1) MUTATED 40 55 17 135 11
AMP PEAK 12(10P15.1) WILD-TYPE 307 167 55 88 38

Figure S86.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.93e-26 (Chi-square test), Q value = 1.2e-23

Table S87.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 12(10P15.1) MUTATED 67 6 23 33 2 24
AMP PEAK 12(10P15.1) WILD-TYPE 34 133 70 104 38 73

Figure S87.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'RPPA_CNMF'

P value = 7e-11 (Fisher's exact test), Q value = 3e-08

Table S88.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 12(10P15.1) MUTATED 78 22 29
AMP PEAK 12(10P15.1) WILD-TYPE 69 111 88

Figure S88.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 2.33e-12 (Fisher's exact test), Q value = 1e-09

Table S89.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 12(10P15.1) MUTATED 30 26 73
AMP PEAK 12(10P15.1) WILD-TYPE 131 84 53

Figure S89.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.61e-31 (Chi-square test), Q value = 9.8e-29

Table S90.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 12(10P15.1) MUTATED 98 12 21 44 40 7 11 5
AMP PEAK 12(10P15.1) WILD-TYPE 48 67 79 87 138 5 140 26

Figure S90.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-28 (Fisher's exact test), Q value = 1.2e-25

Table S91.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 12(10P15.1) MUTATED 69 124 45
AMP PEAK 12(10P15.1) WILD-TYPE 267 81 242

Figure S91.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.5e-27 (Fisher's exact test), Q value = 1.5e-24

Table S92.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 12(10P15.1) MUTATED 43 66 137
AMP PEAK 12(10P15.1) WILD-TYPE 158 363 112

Figure S92.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 12(10p15.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 9.07e-35 (Fisher's exact test), Q value = 5.6e-32

Table S93.  Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 12(10P15.1) MUTATED 126 97 23
AMP PEAK 12(10P15.1) WILD-TYPE 78 519 36

Figure S93.  Get High-res Image Gene #12: 'Amp Peak 12(10p15.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 13(10q22.3) mutation analysis' versus 'MRNA_CNMF'

P value = 2.2e-05 (Chi-square test), Q value = 0.0054

Table S94.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 13(10Q22.3) MUTATED 17 2 5 18 23 8 8 3
AMP PEAK 13(10Q22.3) WILD-TYPE 107 34 18 77 49 12 95 37

Figure S94.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 13(10q22.3) mutation analysis' versus 'CN_CNMF'

P value = 8.18e-09 (Chi-square test), Q value = 3e-06

Table S95.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 13(10Q22.3) MUTATED 23 31 12 59 7
AMP PEAK 13(10Q22.3) WILD-TYPE 324 191 60 164 42

Figure S95.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 13(10q22.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 0.000149 (Chi-square test), Q value = 0.031

Table S96.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 13(10Q22.3) MUTATED 23 5 16 21 2 10
AMP PEAK 13(10Q22.3) WILD-TYPE 78 134 77 116 38 87

Figure S96.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 13(10q22.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.66e-10 (Chi-square test), Q value = 1.1e-07

Table S97.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 13(10Q22.3) MUTATED 29 6 19 33 19 8 8 2
AMP PEAK 13(10Q22.3) WILD-TYPE 117 73 81 98 159 4 143 29

Figure S97.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 13(10q22.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.39e-05 (Fisher's exact test), Q value = 0.0081

Table S98.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 13(10Q22.3) MUTATED 53 47 24
AMP PEAK 13(10Q22.3) WILD-TYPE 283 158 263

Figure S98.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 13(10q22.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 6.57e-06 (Fisher's exact test), Q value = 0.0017

Table S99.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 13(10Q22.3) MUTATED 17 51 59
AMP PEAK 13(10Q22.3) WILD-TYPE 184 378 190

Figure S99.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 13(10q22.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000205 (Fisher's exact test), Q value = 0.042

Table S100.  Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 13(10Q22.3) MUTATED 41 70 16
AMP PEAK 13(10Q22.3) WILD-TYPE 163 546 43

Figure S100.  Get High-res Image Gene #13: 'Amp Peak 13(10q22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 14(11p13) mutation analysis' versus 'CN_CNMF'

P value = 1.84e-10 (Chi-square test), Q value = 7.6e-08

Table S101.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 14(11P13) MUTATED 33 68 13 67 11
AMP PEAK 14(11P13) WILD-TYPE 314 154 59 156 38

Figure S101.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 14(11p13) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.84e-05 (Chi-square test), Q value = 0.011

Table S102.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 14(11P13) MUTATED 27 16 16 44 3 15
AMP PEAK 14(11P13) WILD-TYPE 74 123 77 93 37 82

Figure S102.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 14(11p13) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.45e-06 (Chi-square test), Q value = 0.00092

Table S103.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 14(11P13) MUTATED 47 6 16 35 51 4 17 7
AMP PEAK 14(11P13) WILD-TYPE 99 73 84 96 127 8 134 24

Figure S103.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 14(11p13) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0013 (Fisher's exact test), Q value = 0.22

Table S104.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 14(11P13) MUTATED 81 58 44
AMP PEAK 14(11P13) WILD-TYPE 255 147 243

Figure S104.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 14(11p13) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.18e-05 (Fisher's exact test), Q value = 0.0098

Table S105.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 14(11P13) MUTATED 28 81 76
AMP PEAK 14(11P13) WILD-TYPE 173 348 173

Figure S105.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 14(11p13) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.17e-05 (Fisher's exact test), Q value = 0.0054

Table S106.  Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 14(11P13) MUTATED 61 104 20
AMP PEAK 14(11P13) WILD-TYPE 143 512 39

Figure S106.  Get High-res Image Gene #14: 'Amp Peak 14(11p13) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 15(11q13.3) mutation analysis' versus 'CN_CNMF'

P value = 4.91e-41 (Chi-square test), Q value = 3.1e-38

Table S107.  Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 15(11Q13.3) MUTATED 53 163 28 89 16
AMP PEAK 15(11Q13.3) WILD-TYPE 294 59 44 134 33

Figure S107.  Get High-res Image Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 15(11q13.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4e-10 (Chi-square test), Q value = 1.6e-07

Table S108.  Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 15(11Q13.3) MUTATED 37 31 45 75 11 18
AMP PEAK 15(11Q13.3) WILD-TYPE 64 108 48 62 29 79

Figure S108.  Get High-res Image Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 15(11q13.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.55e-07 (Chi-square test), Q value = 0.00011

Table S109.  Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 15(11Q13.3) MUTATED 49 27 35 62 100 6 39 8
AMP PEAK 15(11Q13.3) WILD-TYPE 97 52 65 69 78 6 112 23

Figure S109.  Get High-res Image Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 15(11q13.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000418 (Fisher's exact test), Q value = 0.079

Table S110.  Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 15(11Q13.3) MUTATED 159 74 93
AMP PEAK 15(11Q13.3) WILD-TYPE 177 131 194

Figure S110.  Get High-res Image Gene #15: 'Amp Peak 15(11q13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 16(11q14.1) mutation analysis' versus 'CN_CNMF'

P value = 1.8e-19 (Chi-square test), Q value = 1e-16

Table S111.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 16(11Q14.1) MUTATED 31 89 19 85 10
AMP PEAK 16(11Q14.1) WILD-TYPE 316 133 53 138 39

Figure S111.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 16(11q14.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 7.93e-06 (Chi-square test), Q value = 0.002

Table S112.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 16(11Q14.1) MUTATED 38 19 32 32 7 13
AMP PEAK 16(11Q14.1) WILD-TYPE 63 120 61 105 33 84

Figure S112.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 16(11q14.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 7.1e-05 (Chi-square test), Q value = 0.016

Table S113.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 16(11Q14.1) MUTATED 53 16 20 44 55 5 24 3
AMP PEAK 16(11Q14.1) WILD-TYPE 93 63 80 87 123 7 127 28

Figure S113.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 16(11q14.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5.79e-05 (Fisher's exact test), Q value = 0.013

Table S114.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 16(11Q14.1) MUTATED 93 74 53
AMP PEAK 16(11Q14.1) WILD-TYPE 243 131 234

Figure S114.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 16(11q14.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 5.71e-07 (Fisher's exact test), Q value = 0.00018

Table S115.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 16(11Q14.1) MUTATED 34 96 94
AMP PEAK 16(11Q14.1) WILD-TYPE 167 333 155

Figure S115.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 16(11q14.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000162 (Fisher's exact test), Q value = 0.034

Table S116.  Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 16(11Q14.1) MUTATED 67 133 24
AMP PEAK 16(11Q14.1) WILD-TYPE 137 483 35

Figure S116.  Get High-res Image Gene #16: 'Amp Peak 16(11q14.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MRNA_CNMF'

P value = 1.91e-12 (Chi-square test), Q value = 8.7e-10

Table S117.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 17(12P13.33) MUTATED 37 5 3 53 29 3 13 3
AMP PEAK 17(12P13.33) WILD-TYPE 87 31 20 42 43 17 90 37

Figure S117.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 2.53e-11 (Fisher's exact test), Q value = 1.1e-08

Table S118.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 17(12P13.33) MUTATED 15 61 70
AMP PEAK 17(12P13.33) WILD-TYPE 125 64 178

Figure S118.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 17(12p13.33) mutation analysis' versus 'CN_CNMF'

P value = 1.68e-28 (Chi-square test), Q value = 1e-25

Table S119.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 17(12P13.33) MUTATED 23 68 22 111 14
AMP PEAK 17(12P13.33) WILD-TYPE 324 154 50 112 35

Figure S119.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'METHLYATION_CNMF'

P value = 7.29e-17 (Chi-square test), Q value = 3.8e-14

Table S120.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 17(12P13.33) MUTATED 54 13 20 44 2 12
AMP PEAK 17(12P13.33) WILD-TYPE 47 126 73 93 38 85

Figure S120.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'RPPA_CNMF'

P value = 2.7e-08 (Fisher's exact test), Q value = 9.5e-06

Table S121.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 17(12P13.33) MUTATED 69 31 18
AMP PEAK 17(12P13.33) WILD-TYPE 78 102 99

Figure S121.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 2.37e-07 (Fisher's exact test), Q value = 7.7e-05

Table S122.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 17(12P13.33) MUTATED 43 16 59
AMP PEAK 17(12P13.33) WILD-TYPE 118 94 67

Figure S122.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.83e-20 (Chi-square test), Q value = 1.6e-17

Table S123.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 17(12P13.33) MUTATED 79 9 18 41 52 2 13 1
AMP PEAK 17(12P13.33) WILD-TYPE 67 70 82 90 126 10 138 30

Figure S123.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.02e-17 (Fisher's exact test), Q value = 1.6e-14

Table S124.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 17(12P13.33) MUTATED 87 95 33
AMP PEAK 17(12P13.33) WILD-TYPE 249 110 254

Figure S124.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.83e-22 (Fisher's exact test), Q value = 2.8e-19

Table S125.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 17(12P13.33) MUTATED 26 77 123
AMP PEAK 17(12P13.33) WILD-TYPE 175 352 126

Figure S125.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 17(12p13.33) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.56e-19 (Fisher's exact test), Q value = 2.5e-16

Table S126.  Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 17(12P13.33) MUTATED 104 107 15
AMP PEAK 17(12P13.33) WILD-TYPE 100 509 44

Figure S126.  Get High-res Image Gene #17: 'Amp Peak 17(12p13.33) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 18(12q15) mutation analysis' versus 'MRNA_CNMF'

P value = 1.81e-08 (Chi-square test), Q value = 6.5e-06

Table S127.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 18(12Q15) MUTATED 56 7 3 20 35 7 16 6
AMP PEAK 18(12Q15) WILD-TYPE 68 29 20 75 37 13 87 34

Figure S127.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 18(12q15) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.000131 (Fisher's exact test), Q value = 0.028

Table S128.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 18(12Q15) MUTATED 27 29 94
AMP PEAK 18(12Q15) WILD-TYPE 113 96 154

Figure S128.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 18(12q15) mutation analysis' versus 'CN_CNMF'

P value = 1.86e-25 (Chi-square test), Q value = 1.1e-22

Table S129.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 18(12Q15) MUTATED 26 106 26 65 12
AMP PEAK 18(12Q15) WILD-TYPE 321 116 46 158 37

Figure S129.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 18(12q15) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.49e-13 (Chi-square test), Q value = 7e-11

Table S130.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 18(12Q15) MUTATED 17 18 19 66 6 11
AMP PEAK 18(12Q15) WILD-TYPE 84 121 74 71 34 86

Figure S130.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 18(12q15) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.07e-09 (Chi-square test), Q value = 3e-06

Table S131.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 18(12Q15) MUTATED 29 12 25 51 74 4 22 6
AMP PEAK 18(12Q15) WILD-TYPE 117 67 75 80 104 8 129 25

Figure S131.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 18(12q15) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4.51e-07 (Fisher's exact test), Q value = 0.00014

Table S132.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 18(12Q15) MUTATED 123 49 51
AMP PEAK 18(12Q15) WILD-TYPE 213 156 236

Figure S132.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 18(12q15) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.16e-09 (Fisher's exact test), Q value = 1.6e-06

Table S133.  Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 18(12Q15) MUTATED 21 119 85
AMP PEAK 18(12Q15) WILD-TYPE 180 310 164

Figure S133.  Get High-res Image Gene #18: 'Amp Peak 18(12q15) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 19(13q12.3) mutation analysis' versus 'CN_CNMF'

P value = 2.22e-05 (Chi-square test), Q value = 0.0055

Table S134.  Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 19(13Q12.3) MUTATED 23 38 13 46 8
AMP PEAK 19(13Q12.3) WILD-TYPE 324 184 59 177 41

Figure S134.  Get High-res Image Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 19(13q12.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 0.00106 (Chi-square test), Q value = 0.18

Table S135.  Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 19(13Q12.3) MUTATED 25 7 12 33 29 2 12 1
AMP PEAK 19(13Q12.3) WILD-TYPE 121 72 88 98 149 10 139 30

Figure S135.  Get High-res Image Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 19(13q12.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000643 (Fisher's exact test), Q value = 0.12

Table S136.  Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 19(13Q12.3) MUTATED 61 36 24
AMP PEAK 19(13Q12.3) WILD-TYPE 275 169 263

Figure S136.  Get High-res Image Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 19(13q12.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.26e-06 (Fisher's exact test), Q value = 0.00088

Table S137.  Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 19(13Q12.3) MUTATED 12 55 55
AMP PEAK 19(13Q12.3) WILD-TYPE 189 374 194

Figure S137.  Get High-res Image Gene #19: 'Amp Peak 19(13q12.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'MRNA_CNMF'

P value = 9.14e-10 (Chi-square test), Q value = 3.6e-07

Table S138.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 20(13Q34) MUTATED 19 3 3 42 10 4 15 0
AMP PEAK 20(13Q34) WILD-TYPE 105 33 20 53 62 16 88 40

Figure S138.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 5.78e-09 (Fisher's exact test), Q value = 2.2e-06

Table S139.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 20(13Q34) MUTATED 12 47 37
AMP PEAK 20(13Q34) WILD-TYPE 128 78 211

Figure S139.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 20(13q34) mutation analysis' versus 'CN_CNMF'

P value = 1.51e-17 (Chi-square test), Q value = 8.1e-15

Table S140.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 20(13Q34) MUTATED 28 33 9 83 6
AMP PEAK 20(13Q34) WILD-TYPE 319 189 63 140 43

Figure S140.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.33e-14 (Chi-square test), Q value = 6.5e-12

Table S141.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 20(13Q34) MUTATED 44 8 13 20 1 12
AMP PEAK 20(13Q34) WILD-TYPE 57 131 80 117 39 85

Figure S141.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'RPPA_CNMF'

P value = 8.21e-06 (Fisher's exact test), Q value = 0.0021

Table S142.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 20(13Q34) MUTATED 48 22 11
AMP PEAK 20(13Q34) WILD-TYPE 99 111 106

Figure S142.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 5.1e-08 (Fisher's exact test), Q value = 1.7e-05

Table S143.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 20(13Q34) MUTATED 25 9 47
AMP PEAK 20(13Q34) WILD-TYPE 136 101 79

Figure S143.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 20(13q34) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.13e-17 (Chi-square test), Q value = 1.1e-14

Table S144.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 20(13Q34) MUTATED 61 4 9 24 30 4 11 0
AMP PEAK 20(13Q34) WILD-TYPE 85 75 91 107 148 8 140 31

Figure S144.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6.84e-15 (Fisher's exact test), Q value = 3.4e-12

Table S145.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 20(13Q34) MUTATED 46 74 23
AMP PEAK 20(13Q34) WILD-TYPE 290 131 264

Figure S145.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 20(13q34) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.55e-15 (Fisher's exact test), Q value = 1.3e-12

Table S146.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 20(13Q34) MUTATED 24 43 87
AMP PEAK 20(13Q34) WILD-TYPE 177 386 162

Figure S146.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 20(13q34) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.27e-19 (Fisher's exact test), Q value = 7.1e-17

Table S147.  Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 20(13Q34) MUTATED 81 60 13
AMP PEAK 20(13Q34) WILD-TYPE 123 556 46

Figure S147.  Get High-res Image Gene #20: 'Amp Peak 20(13q34) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 21(14q21.1) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000259 (Chi-square test), Q value = 0.051

Table S148.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 21(14Q21.1) MUTATED 35 7 5 11 26 6 20 1
AMP PEAK 21(14Q21.1) WILD-TYPE 89 29 18 84 46 14 83 39

Figure S148.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 21(14q21.1) mutation analysis' versus 'CN_CNMF'

P value = 1.97e-09 (Chi-square test), Q value = 7.7e-07

Table S149.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 21(14Q21.1) MUTATED 34 73 15 49 10
AMP PEAK 21(14Q21.1) WILD-TYPE 313 149 57 174 39

Figure S149.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 21(14q21.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 5.16e-05 (Chi-square test), Q value = 0.012

Table S150.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 21(14Q21.1) MUTATED 13 18 23 41 4 9
AMP PEAK 21(14Q21.1) WILD-TYPE 88 121 70 96 36 88

Figure S150.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 21(14q21.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.13e-08 (Chi-square test), Q value = 7.6e-06

Table S151.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 21(14Q21.1) MUTATED 15 12 24 46 52 4 21 0
AMP PEAK 21(14Q21.1) WILD-TYPE 131 67 76 85 126 8 130 31

Figure S151.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 21(14q21.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.5e-05 (Fisher's exact test), Q value = 0.0038

Table S152.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 21(14Q21.1) MUTATED 98 33 43
AMP PEAK 21(14Q21.1) WILD-TYPE 238 172 244

Figure S152.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 21(14q21.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 0.000104 (Fisher's exact test), Q value = 0.022

Table S153.  Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 21(14Q21.1) MUTATED 20 93 61
AMP PEAK 21(14Q21.1) WILD-TYPE 181 336 188

Figure S153.  Get High-res Image Gene #21: 'Amp Peak 21(14q21.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'MRNA_CNMF'

P value = 3.31e-07 (Chi-square test), Q value = 0.00011

Table S154.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 22(15Q26.3) MUTATED 32 7 2 32 16 8 4 2
AMP PEAK 22(15Q26.3) WILD-TYPE 92 29 21 63 56 12 99 38

Figure S154.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'CN_CNMF'

P value = 1.88e-15 (Chi-square test), Q value = 9.6e-13

Table S155.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 22(15Q26.3) MUTATED 30 47 6 79 4
AMP PEAK 22(15Q26.3) WILD-TYPE 317 175 66 144 45

Figure S155.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 0.000326 (Chi-square test), Q value = 0.063

Table S156.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 22(15Q26.3) MUTATED 26 6 17 26 6 14
AMP PEAK 22(15Q26.3) WILD-TYPE 75 133 76 111 34 83

Figure S156.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000153 (Fisher's exact test), Q value = 0.032

Table S157.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 22(15Q26.3) MUTATED 47 18 17
AMP PEAK 22(15Q26.3) WILD-TYPE 100 115 100

Figure S157.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.43e-06 (Chi-square test), Q value = 0.00041

Table S158.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 22(15Q26.3) MUTATED 47 11 11 24 43 3 13 2
AMP PEAK 22(15Q26.3) WILD-TYPE 99 68 89 107 135 9 138 29

Figure S158.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4.16e-06 (Fisher's exact test), Q value = 0.0011

Table S159.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 22(15Q26.3) MUTATED 59 61 34
AMP PEAK 22(15Q26.3) WILD-TYPE 277 144 253

Figure S159.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 22(15q26.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.75e-07 (Fisher's exact test), Q value = 8.8e-05

Table S160.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 22(15Q26.3) MUTATED 26 58 74
AMP PEAK 22(15Q26.3) WILD-TYPE 175 371 175

Figure S160.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 22(15q26.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 9.15e-10 (Fisher's exact test), Q value = 3.6e-07

Table S161.  Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 22(15Q26.3) MUTATED 68 78 12
AMP PEAK 22(15Q26.3) WILD-TYPE 136 538 47

Figure S161.  Get High-res Image Gene #22: 'Amp Peak 22(15q26.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 23(17q12) mutation analysis' versus 'MRNA_CNMF'

P value = 1.49e-14 (Chi-square test), Q value = 7.3e-12

Table S162.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 23(17Q12) MUTATED 52 12 8 19 49 7 14 4
AMP PEAK 23(17Q12) WILD-TYPE 72 24 15 76 23 13 89 36

Figure S162.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 23(17q12) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 3e-04 (Fisher's exact test), Q value = 0.058

Table S163.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 23(17Q12) MUTATED 28 39 98
AMP PEAK 23(17Q12) WILD-TYPE 112 86 150

Figure S163.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 23(17q12) mutation analysis' versus 'CN_CNMF'

P value = 7.29e-34 (Chi-square test), Q value = 4.5e-31

Table S164.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 23(17Q12) MUTATED 55 146 22 57 15
AMP PEAK 23(17Q12) WILD-TYPE 292 76 50 166 34

Figure S164.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 23(17q12) mutation analysis' versus 'METHLYATION_CNMF'

P value = 5.76e-09 (Chi-square test), Q value = 2.2e-06

Table S165.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 23(17Q12) MUTATED 27 24 40 69 11 21
AMP PEAK 23(17Q12) WILD-TYPE 74 115 53 68 29 76

Figure S165.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 23(17q12) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 5.06e-22 (Chi-square test), Q value = 2.9e-19

Table S166.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 23(17Q12) MUTATED 28 21 37 83 81 3 18 5
AMP PEAK 23(17Q12) WILD-TYPE 118 58 63 48 97 9 133 26

Figure S166.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 23(17q12) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.57e-05 (Fisher's exact test), Q value = 0.0039

Table S167.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 23(17Q12) MUTATED 139 69 68
AMP PEAK 23(17Q12) WILD-TYPE 197 136 219

Figure S167.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 23(17q12) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000519 (Fisher's exact test), Q value = 0.098

Table S168.  Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 23(17Q12) MUTATED 66 187 33
AMP PEAK 23(17Q12) WILD-TYPE 138 429 26

Figure S168.  Get High-res Image Gene #23: 'Amp Peak 23(17q12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 24(17q23.1) mutation analysis' versus 'MRNA_CNMF'

P value = 2.42e-14 (Chi-square test), Q value = 1.2e-11

Table S169.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 24(17Q23.1) MUTATED 81 17 8 29 43 11 16 10
AMP PEAK 24(17Q23.1) WILD-TYPE 43 19 15 66 29 9 87 30

Figure S169.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 24(17q23.1) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.00149 (Fisher's exact test), Q value = 0.25

Table S170.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 24(17Q23.1) MUTATED 44 48 123
AMP PEAK 24(17Q23.1) WILD-TYPE 96 77 125

Figure S170.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 24(17q23.1) mutation analysis' versus 'CN_CNMF'

P value = 6.19e-38 (Chi-square test), Q value = 3.8e-35

Table S171.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 24(17Q23.1) MUTATED 66 166 21 102 19
AMP PEAK 24(17Q23.1) WILD-TYPE 281 56 51 121 30

Figure S171.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 24(17q23.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.45e-10 (Chi-square test), Q value = 6e-08

Table S172.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 24(17Q23.1) MUTATED 42 31 40 85 17 25
AMP PEAK 24(17Q23.1) WILD-TYPE 59 108 53 52 23 72

Figure S172.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 24(17q23.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 5.61e-22 (Chi-square test), Q value = 3.2e-19

Table S173.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 24(17Q23.1) MUTATED 49 31 39 76 119 7 21 9
AMP PEAK 24(17Q23.1) WILD-TYPE 97 48 61 55 59 5 130 22

Figure S173.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 24(17q23.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6.48e-05 (Fisher's exact test), Q value = 0.015

Table S174.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 24(17Q23.1) MUTATED 172 81 98
AMP PEAK 24(17Q23.1) WILD-TYPE 164 124 189

Figure S174.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 24(17q23.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.78e-06 (Fisher's exact test), Q value = 5e-04

Table S175.  Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 24(17Q23.1) MUTATED 60 170 133
AMP PEAK 24(17Q23.1) WILD-TYPE 141 259 116

Figure S175.  Get High-res Image Gene #24: 'Amp Peak 24(17q23.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'MRNA_CNMF'

P value = 2.12e-12 (Chi-square test), Q value = 9.6e-10

Table S176.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 25(19Q12) MUTATED 30 4 4 56 20 7 14 5
AMP PEAK 25(19Q12) WILD-TYPE 94 32 19 39 52 13 89 35

Figure S176.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 9.11e-11 (Fisher's exact test), Q value = 3.8e-08

Table S177.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 25(19Q12) MUTATED 22 64 54
AMP PEAK 25(19Q12) WILD-TYPE 118 61 194

Figure S177.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 25(19q12) mutation analysis' versus 'CN_CNMF'

P value = 1.28e-21 (Chi-square test), Q value = 7.4e-19

Table S178.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 25(19Q12) MUTATED 41 44 26 108 14
AMP PEAK 25(19Q12) WILD-TYPE 306 178 46 115 35

Figure S178.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.2e-12 (Chi-square test), Q value = 1.9e-09

Table S179.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 25(19Q12) MUTATED 53 15 20 34 4 22
AMP PEAK 25(19Q12) WILD-TYPE 48 124 73 103 36 75

Figure S179.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'RPPA_CNMF'

P value = 6.19e-07 (Fisher's exact test), Q value = 0.00019

Table S180.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 25(19Q12) MUTATED 64 23 23
AMP PEAK 25(19Q12) WILD-TYPE 83 110 94

Figure S180.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 9.68e-07 (Fisher's exact test), Q value = 0.00029

Table S181.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
AMP PEAK 25(19Q12) MUTATED 29 24 57
AMP PEAK 25(19Q12) WILD-TYPE 132 86 69

Figure S181.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Amp Peak 25(19q12) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 5.19e-18 (Chi-square test), Q value = 2.8e-15

Table S182.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 25(19Q12) MUTATED 80 14 23 37 38 5 14 3
AMP PEAK 25(19Q12) WILD-TYPE 66 65 77 94 140 7 137 28

Figure S182.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4.69e-16 (Fisher's exact test), Q value = 2.4e-13

Table S183.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 25(19Q12) MUTATED 67 100 47
AMP PEAK 25(19Q12) WILD-TYPE 269 105 240

Figure S183.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 25(19q12) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.91e-12 (Fisher's exact test), Q value = 8.7e-10

Table S184.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 25(19Q12) MUTATED 43 76 108
AMP PEAK 25(19Q12) WILD-TYPE 158 353 141

Figure S184.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 25(19q12) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.31e-17 (Fisher's exact test), Q value = 7.1e-15

Table S185.  Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 25(19Q12) MUTATED 101 108 18
AMP PEAK 25(19Q12) WILD-TYPE 103 508 41

Figure S185.  Get High-res Image Gene #25: 'Amp Peak 25(19q12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 26(19q13.42) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000775 (Chi-square test), Q value = 0.14

Table S186.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 26(19Q13.42) MUTATED 38 8 5 37 22 10 15 6
AMP PEAK 26(19Q13.42) WILD-TYPE 86 28 18 58 50 10 88 34

Figure S186.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 26(19q13.42) mutation analysis' versus 'CN_CNMF'

P value = 2.5e-14 (Chi-square test), Q value = 1.2e-11

Table S187.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 26(19Q13.42) MUTATED 41 59 27 92 16
AMP PEAK 26(19Q13.42) WILD-TYPE 306 163 45 131 33

Figure S187.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 26(19q13.42) mutation analysis' versus 'METHLYATION_CNMF'

P value = 6.23e-07 (Chi-square test), Q value = 0.00019

Table S188.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 26(19Q13.42) MUTATED 34 15 25 51 5 17
AMP PEAK 26(19Q13.42) WILD-TYPE 67 124 68 86 35 80

Figure S188.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 26(19q13.42) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 9.43e-07 (Chi-square test), Q value = 0.00028

Table S189.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 26(19Q13.42) MUTATED 50 20 26 41 56 8 16 4
AMP PEAK 26(19Q13.42) WILD-TYPE 96 59 74 90 122 4 135 27

Figure S189.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 26(19q13.42) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.79e-05 (Fisher's exact test), Q value = 0.0045

Table S190.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 26(19Q13.42) MUTATED 36 102 91
AMP PEAK 26(19Q13.42) WILD-TYPE 165 327 158

Figure S190.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 26(19q13.42) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.000101 (Fisher's exact test), Q value = 0.022

Table S191.  Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 26(19Q13.42) MUTATED 71 135 23
AMP PEAK 26(19Q13.42) WILD-TYPE 133 481 36

Figure S191.  Get High-res Image Gene #26: 'Amp Peak 26(19q13.42) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MRNA_CNMF'

P value = 1.35e-09 (Chi-square test), Q value = 5.3e-07

Table S192.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
AMP PEAK 27(20Q13.2) MUTATED 87 18 10 51 49 15 34 10
AMP PEAK 27(20Q13.2) WILD-TYPE 37 18 13 44 23 5 69 30

Figure S192.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.000278 (Fisher's exact test), Q value = 0.055

Table S193.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
AMP PEAK 27(20Q13.2) MUTATED 55 69 150
AMP PEAK 27(20Q13.2) WILD-TYPE 85 56 98

Figure S193.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Amp Peak 27(20q13.2) mutation analysis' versus 'CN_CNMF'

P value = 9.78e-50 (Chi-square test), Q value = 6.2e-47

Table S194.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
AMP PEAK 27(20Q13.2) MUTATED 67 170 43 158 27
AMP PEAK 27(20Q13.2) WILD-TYPE 280 52 29 65 22

Figure S194.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 5.18e-25 (Chi-square test), Q value = 3.1e-22

Table S195.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
AMP PEAK 27(20Q13.2) MUTATED 61 28 48 111 12 32
AMP PEAK 27(20Q13.2) WILD-TYPE 40 111 45 26 28 65

Figure S195.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000604 (Fisher's exact test), Q value = 0.11

Table S196.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
AMP PEAK 27(20Q13.2) MUTATED 99 67 53
AMP PEAK 27(20Q13.2) WILD-TYPE 48 66 64

Figure S196.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.54e-18 (Chi-square test), Q value = 8.4e-16

Table S197.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
AMP PEAK 27(20Q13.2) MUTATED 78 31 55 86 132 8 40 8
AMP PEAK 27(20Q13.2) WILD-TYPE 68 48 45 45 46 4 111 23

Figure S197.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.41e-08 (Fisher's exact test), Q value = 8.5e-06

Table S198.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
AMP PEAK 27(20Q13.2) MUTATED 211 114 113
AMP PEAK 27(20Q13.2) WILD-TYPE 125 91 174

Figure S198.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.22e-11 (Fisher's exact test), Q value = 9.7e-09

Table S199.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
AMP PEAK 27(20Q13.2) MUTATED 67 220 165
AMP PEAK 27(20Q13.2) WILD-TYPE 134 209 84

Figure S199.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Amp Peak 27(20q13.2) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.17e-08 (Fisher's exact test), Q value = 1.1e-05

Table S200.  Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
AMP PEAK 27(20Q13.2) MUTATED 117 286 49
AMP PEAK 27(20Q13.2) WILD-TYPE 87 330 10

Figure S200.  Get High-res Image Gene #27: 'Amp Peak 27(20q13.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 1(1p36.13) mutation analysis' versus 'MRNA_CNMF'

P value = 3.27e-05 (Chi-square test), Q value = 0.0078

Table S201.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 1(1P36.13) MUTATED 65 11 7 40 46 7 30 12
DEL PEAK 1(1P36.13) WILD-TYPE 59 25 16 55 26 13 73 28

Figure S201.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 1(1p36.13) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.000651 (Fisher's exact test), Q value = 0.12

Table S202.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 1(1P36.13) MUTATED 43 50 125
DEL PEAK 1(1P36.13) WILD-TYPE 97 75 123

Figure S202.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 1(1p36.13) mutation analysis' versus 'CN_CNMF'

P value = 6.02e-32 (Chi-square test), Q value = 3.7e-29

Table S203.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 1(1P36.13) MUTATED 58 135 47 120 20
DEL PEAK 1(1P36.13) WILD-TYPE 289 87 25 103 29

Figure S203.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 1(1p36.13) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.81e-09 (Chi-square test), Q value = 1.1e-06

Table S204.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 1(1P36.13) MUTATED 46 33 50 76 11 25
DEL PEAK 1(1P36.13) WILD-TYPE 55 106 43 61 29 72

Figure S204.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 1(1p36.13) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.35e-07 (Chi-square test), Q value = 7.6e-05

Table S205.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 1(1P36.13) MUTATED 60 22 38 76 93 7 47 6
DEL PEAK 1(1P36.13) WILD-TYPE 86 57 62 55 85 5 104 25

Figure S205.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 1(1p36.13) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.4e-10 (Fisher's exact test), Q value = 1.4e-07

Table S206.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 1(1P36.13) MUTATED 185 80 84
DEL PEAK 1(1P36.13) WILD-TYPE 151 125 203

Figure S206.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 1(1p36.13) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.64e-11 (Fisher's exact test), Q value = 1.1e-08

Table S207.  Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 1(1P36.13) MUTATED 45 181 135
DEL PEAK 1(1P36.13) WILD-TYPE 156 248 114

Figure S207.  Get High-res Image Gene #28: 'Del Peak 1(1p36.13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 2(1p22.1) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 8.39e-05 (Fisher's exact test), Q value = 0.018

Table S208.  Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 2(1P22.1) MUTATED 40 30 110
DEL PEAK 2(1P22.1) WILD-TYPE 100 95 138

Figure S208.  Get High-res Image Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 2(1p22.1) mutation analysis' versus 'CN_CNMF'

P value = 5.77e-22 (Chi-square test), Q value = 3.3e-19

Table S209.  Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 2(1P22.1) MUTATED 61 117 45 70 12
DEL PEAK 2(1P22.1) WILD-TYPE 286 105 27 153 37

Figure S209.  Get High-res Image Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 2(1p22.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 0.00103 (Chi-square test), Q value = 0.18

Table S210.  Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 2(1P22.1) MUTATED 25 35 40 56 13 21
DEL PEAK 2(1P22.1) WILD-TYPE 76 104 53 81 27 76

Figure S210.  Get High-res Image Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 2(1p22.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.14e-07 (Chi-square test), Q value = 6.9e-05

Table S211.  Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 2(1P22.1) MUTATED 31 20 36 69 75 3 47 5
DEL PEAK 2(1P22.1) WILD-TYPE 115 59 64 62 103 9 104 26

Figure S211.  Get High-res Image Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 2(1p22.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.43e-08 (Fisher's exact test), Q value = 5.2e-06

Table S212.  Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 2(1P22.1) MUTATED 156 49 81
DEL PEAK 2(1P22.1) WILD-TYPE 180 156 206

Figure S212.  Get High-res Image Gene #29: 'Del Peak 2(1p22.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 3(2q37.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.39e-06 (Chi-square test), Q value = 0.00041

Table S213.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 3(2Q37.3) MUTATED 43 10 5 46 28 6 22 0
DEL PEAK 3(2Q37.3) WILD-TYPE 81 26 18 49 44 14 81 40

Figure S213.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 3.78e-08 (Fisher's exact test), Q value = 1.3e-05

Table S214.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 3(2Q37.3) MUTATED 20 58 82
DEL PEAK 3(2Q37.3) WILD-TYPE 120 67 166

Figure S214.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 3(2q37.3) mutation analysis' versus 'CN_CNMF'

P value = 1.57e-20 (Chi-square test), Q value = 8.9e-18

Table S215.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 3(2Q37.3) MUTATED 39 76 26 108 16
DEL PEAK 3(2Q37.3) WILD-TYPE 308 146 46 115 33

Figure S215.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.61e-10 (Chi-square test), Q value = 1.1e-07

Table S216.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 3(2Q37.3) MUTATED 44 19 25 53 4 12
DEL PEAK 3(2Q37.3) WILD-TYPE 57 120 68 84 36 85

Figure S216.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'RPPA_CNMF'

P value = 1.03e-08 (Fisher's exact test), Q value = 3.8e-06

Table S217.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 3(2Q37.3) MUTATED 70 38 16
DEL PEAK 3(2Q37.3) WILD-TYPE 77 95 101

Figure S217.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.11e-07 (Fisher's exact test), Q value = 3.7e-05

Table S218.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 3(2Q37.3) MUTATED 56 13 55
DEL PEAK 3(2Q37.3) WILD-TYPE 105 97 71

Figure S218.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 3(2q37.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.57e-08 (Chi-square test), Q value = 9.1e-06

Table S219.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 3(2Q37.3) MUTATED 67 14 29 45 60 3 28 0
DEL PEAK 3(2Q37.3) WILD-TYPE 79 65 71 86 118 9 123 31

Figure S219.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5.12e-09 (Fisher's exact test), Q value = 1.9e-06

Table S220.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 3(2Q37.3) MUTATED 110 86 50
DEL PEAK 3(2Q37.3) WILD-TYPE 226 119 237

Figure S220.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 3(2q37.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 2.5e-12 (Fisher's exact test), Q value = 1.1e-09

Table S221.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 3(2Q37.3) MUTATED 31 111 114
DEL PEAK 3(2Q37.3) WILD-TYPE 170 318 135

Figure S221.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 3(2q37.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.11e-07 (Fisher's exact test), Q value = 6.9e-05

Table S222.  Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 3(2Q37.3) MUTATED 84 145 27
DEL PEAK 3(2Q37.3) WILD-TYPE 120 471 32

Figure S222.  Get High-res Image Gene #30: 'Del Peak 3(2q37.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 4(3p14.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.06e-10 (Chi-square test), Q value = 4.4e-08

Table S223.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 4(3P14.3) MUTATED 39 11 4 50 34 9 8 8
DEL PEAK 4(3P14.3) WILD-TYPE 85 25 19 45 38 11 95 32

Figure S223.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 3.11e-08 (Fisher's exact test), Q value = 1.1e-05

Table S224.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 4(3P14.3) MUTATED 36 67 60
DEL PEAK 4(3P14.3) WILD-TYPE 104 58 188

Figure S224.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 4(3p14.3) mutation analysis' versus 'CN_CNMF'

P value = 2.93e-33 (Chi-square test), Q value = 1.8e-30

Table S225.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 4(3P14.3) MUTATED 44 80 12 134 8
DEL PEAK 4(3P14.3) WILD-TYPE 303 142 60 89 41

Figure S225.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 5.78e-13 (Chi-square test), Q value = 2.7e-10

Table S226.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 4(3P14.3) MUTATED 49 9 35 51 12 18
DEL PEAK 4(3P14.3) WILD-TYPE 52 130 58 86 28 79

Figure S226.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'RPPA_CNMF'

P value = 1.18e-09 (Fisher's exact test), Q value = 4.7e-07

Table S227.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 4(3P14.3) MUTATED 79 25 32
DEL PEAK 4(3P14.3) WILD-TYPE 68 108 85

Figure S227.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 5.21e-06 (Fisher's exact test), Q value = 0.0014

Table S228.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 4(3P14.3) MUTATED 40 31 65
DEL PEAK 4(3P14.3) WILD-TYPE 121 79 61

Figure S228.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 4(3p14.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.98e-19 (Chi-square test), Q value = 1.7e-16

Table S229.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 4(3P14.3) MUTATED 76 21 18 62 59 6 10 5
DEL PEAK 4(3P14.3) WILD-TYPE 70 58 82 69 119 6 141 26

Figure S229.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 9.74e-14 (Fisher's exact test), Q value = 4.6e-11

Table S230.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 4(3P14.3) MUTATED 90 108 59
DEL PEAK 4(3P14.3) WILD-TYPE 246 97 228

Figure S230.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 4(3p14.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.34e-20 (Fisher's exact test), Q value = 2.4e-17

Table S231.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 4(3P14.3) MUTATED 44 88 135
DEL PEAK 4(3P14.3) WILD-TYPE 157 341 114

Figure S231.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 4(3p14.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.06e-14 (Fisher's exact test), Q value = 5.3e-12

Table S232.  Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 4(3P14.3) MUTATED 105 137 25
DEL PEAK 4(3P14.3) WILD-TYPE 99 479 34

Figure S232.  Get High-res Image Gene #31: 'Del Peak 4(3p14.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 5(4p16.3) mutation analysis' versus 'MRNA_CNMF'

P value = 5.63e-11 (Chi-square test), Q value = 2.4e-08

Table S233.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 5(4P16.3) MUTATED 28 10 4 55 37 7 21 5
DEL PEAK 5(4P16.3) WILD-TYPE 96 26 19 40 35 13 82 35

Figure S233.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 6.3e-12 (Fisher's exact test), Q value = 2.8e-09

Table S234.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 5(4P16.3) MUTATED 24 72 71
DEL PEAK 5(4P16.3) WILD-TYPE 116 53 177

Figure S234.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 5(4p16.3) mutation analysis' versus 'CN_CNMF'

P value = 1.98e-26 (Chi-square test), Q value = 1.2e-23

Table S235.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 5(4P16.3) MUTATED 55 52 31 130 13
DEL PEAK 5(4P16.3) WILD-TYPE 292 170 41 93 36

Figure S235.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 8.41e-13 (Chi-square test), Q value = 3.9e-10

Table S236.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 5(4P16.3) MUTATED 62 30 27 28 5 25
DEL PEAK 5(4P16.3) WILD-TYPE 39 109 66 109 35 72

Figure S236.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'RPPA_CNMF'

P value = 4.6e-07 (Fisher's exact test), Q value = 0.00014

Table S237.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 5(4P16.3) MUTATED 75 39 24
DEL PEAK 5(4P16.3) WILD-TYPE 72 94 93

Figure S237.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.62e-06 (Fisher's exact test), Q value = 0.00046

Table S238.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 5(4P16.3) MUTATED 48 24 66
DEL PEAK 5(4P16.3) WILD-TYPE 113 86 60

Figure S238.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 5(4p16.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.81e-18 (Chi-square test), Q value = 2.1e-15

Table S239.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 5(4P16.3) MUTATED 84 13 22 61 37 5 34 2
DEL PEAK 5(4P16.3) WILD-TYPE 62 66 78 70 141 7 117 29

Figure S239.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5.23e-21 (Fisher's exact test), Q value = 3e-18

Table S240.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 5(4P16.3) MUTATED 97 116 45
DEL PEAK 5(4P16.3) WILD-TYPE 239 89 242

Figure S240.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 5(4p16.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 5.59e-15 (Fisher's exact test), Q value = 2.8e-12

Table S241.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 5(4P16.3) MUTATED 40 103 127
DEL PEAK 5(4P16.3) WILD-TYPE 161 326 122

Figure S241.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 5(4p16.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.69e-15 (Fisher's exact test), Q value = 8.6e-13

Table S242.  Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 5(4P16.3) MUTATED 108 138 24
DEL PEAK 5(4P16.3) WILD-TYPE 96 478 35

Figure S242.  Get High-res Image Gene #32: 'Del Peak 5(4p16.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 6(4q35.2) mutation analysis' versus 'MRNA_CNMF'

P value = 3.17e-06 (Chi-square test), Q value = 0.00086

Table S243.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 6(4Q35.2) MUTATED 27 10 7 50 30 10 23 8
DEL PEAK 6(4Q35.2) WILD-TYPE 97 26 16 45 42 10 80 32

Figure S243.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 9.81e-07 (Fisher's exact test), Q value = 0.00029

Table S244.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 6(4Q35.2) MUTATED 29 63 73
DEL PEAK 6(4Q35.2) WILD-TYPE 111 62 175

Figure S244.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 6(4q35.2) mutation analysis' versus 'CN_CNMF'

P value = 2.71e-37 (Chi-square test), Q value = 1.7e-34

Table S245.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 6(4Q35.2) MUTATED 53 42 36 141 11
DEL PEAK 6(4Q35.2) WILD-TYPE 294 180 36 82 38

Figure S245.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.66e-13 (Chi-square test), Q value = 7.8e-11

Table S246.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 6(4Q35.2) MUTATED 63 29 23 26 7 29
DEL PEAK 6(4Q35.2) WILD-TYPE 38 110 70 111 33 68

Figure S246.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'RPPA_CNMF'

P value = 1.51e-08 (Fisher's exact test), Q value = 5.5e-06

Table S247.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 6(4Q35.2) MUTATED 78 35 24
DEL PEAK 6(4Q35.2) WILD-TYPE 69 98 93

Figure S247.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.78e-06 (Fisher's exact test), Q value = 5e-04

Table S248.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 6(4Q35.2) MUTATED 46 25 66
DEL PEAK 6(4Q35.2) WILD-TYPE 115 85 60

Figure S248.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 6(4q35.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 9.23e-18 (Chi-square test), Q value = 5e-15

Table S249.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 6(4Q35.2) MUTATED 84 14 19 59 35 7 37 4
DEL PEAK 6(4Q35.2) WILD-TYPE 62 65 81 72 143 5 114 27

Figure S249.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.1e-16 (Fisher's exact test), Q value = 1.1e-13

Table S250.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 6(4Q35.2) MUTATED 101 109 49
DEL PEAK 6(4Q35.2) WILD-TYPE 235 96 238

Figure S250.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 6(4q35.2) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 9.72e-16 (Fisher's exact test), Q value = 5e-13

Table S251.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 6(4Q35.2) MUTATED 38 104 128
DEL PEAK 6(4Q35.2) WILD-TYPE 163 325 121

Figure S251.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 6(4q35.2) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.43e-17 (Fisher's exact test), Q value = 1.3e-14

Table S252.  Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 6(4Q35.2) MUTATED 111 135 24
DEL PEAK 6(4Q35.2) WILD-TYPE 93 481 35

Figure S252.  Get High-res Image Gene #33: 'Del Peak 6(4q35.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 7(5q11.2) mutation analysis' versus 'MRNA_CNMF'

P value = 1.17e-27 (Chi-square test), Q value = 7e-25

Table S253.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 7(5Q11.2) MUTATED 19 5 2 68 25 3 8 4
DEL PEAK 7(5Q11.2) WILD-TYPE 105 31 21 27 47 17 95 36

Figure S253.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 6.11e-25 (Fisher's exact test), Q value = 3.6e-22

Table S254.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 7(5Q11.2) MUTATED 14 79 41
DEL PEAK 7(5Q11.2) WILD-TYPE 126 46 207

Figure S254.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 7(5q11.2) mutation analysis' versus 'CN_CNMF'

P value = 5.91e-60 (Chi-square test), Q value = 3.8e-57

Table S255.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 7(5Q11.2) MUTATED 35 29 8 152 10
DEL PEAK 7(5Q11.2) WILD-TYPE 312 193 64 71 39

Figure S255.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.43e-39 (Chi-square test), Q value = 8.9e-37

Table S256.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 7(5Q11.2) MUTATED 78 4 15 28 5 22
DEL PEAK 7(5Q11.2) WILD-TYPE 23 135 78 109 35 75

Figure S256.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'RPPA_CNMF'

P value = 3.33e-16 (Fisher's exact test), Q value = 1.7e-13

Table S257.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 7(5Q11.2) MUTATED 78 13 23
DEL PEAK 7(5Q11.2) WILD-TYPE 69 120 94

Figure S257.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 7.43e-19 (Fisher's exact test), Q value = 4.1e-16

Table S258.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 7(5Q11.2) MUTATED 26 13 75
DEL PEAK 7(5Q11.2) WILD-TYPE 135 97 51

Figure S258.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 7(5q11.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.4e-46 (Chi-square test), Q value = 8.9e-44

Table S259.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 7(5Q11.2) MUTATED 106 5 15 42 35 5 8 2
DEL PEAK 7(5Q11.2) WILD-TYPE 40 74 85 89 143 7 143 29

Figure S259.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 4.66e-44 (Fisher's exact test), Q value = 2.9e-41

Table S260.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 7(5Q11.2) MUTATED 61 132 25
DEL PEAK 7(5Q11.2) WILD-TYPE 275 73 262

Figure S260.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 7(5q11.2) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 5.18e-41 (Fisher's exact test), Q value = 3.2e-38

Table S261.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 7(5Q11.2) MUTATED 28 49 144
DEL PEAK 7(5Q11.2) WILD-TYPE 173 380 105

Figure S261.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 7(5q11.2) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.87e-49 (Fisher's exact test), Q value = 1.2e-46

Table S262.  Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 7(5Q11.2) MUTATED 134 70 17
DEL PEAK 7(5Q11.2) WILD-TYPE 70 546 42

Figure S262.  Get High-res Image Gene #34: 'Del Peak 7(5q11.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 8(5q21.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.36e-29 (Chi-square test), Q value = 8.2e-27

Table S263.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 8(5Q21.3) MUTATED 19 5 2 69 24 5 7 2
DEL PEAK 8(5Q21.3) WILD-TYPE 105 31 21 26 48 15 96 38

Figure S263.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1e-26 (Fisher's exact test), Q value = 6e-24

Table S264.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 8(5Q21.3) MUTATED 12 80 41
DEL PEAK 8(5Q21.3) WILD-TYPE 128 45 207

Figure S264.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 8(5q21.3) mutation analysis' versus 'CN_CNMF'

P value = 6.13e-70 (Chi-square test), Q value = 3.9e-67

Table S265.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 8(5Q21.3) MUTATED 28 25 7 156 9
DEL PEAK 8(5Q21.3) WILD-TYPE 319 197 65 67 40

Figure S265.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 3.25e-51 (Chi-square test), Q value = 2.1e-48

Table S266.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 8(5Q21.3) MUTATED 84 4 10 23 3 22
DEL PEAK 8(5Q21.3) WILD-TYPE 17 135 83 114 37 75

Figure S266.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'RPPA_CNMF'

P value = 2.6e-15 (Fisher's exact test), Q value = 1.3e-12

Table S267.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 8(5Q21.3) MUTATED 76 13 23
DEL PEAK 8(5Q21.3) WILD-TYPE 71 120 94

Figure S267.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 8.97e-16 (Fisher's exact test), Q value = 4.6e-13

Table S268.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 8(5Q21.3) MUTATED 26 15 71
DEL PEAK 8(5Q21.3) WILD-TYPE 135 95 55

Figure S268.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 8(5q21.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 5.55e-54 (Chi-square test), Q value = 3.5e-51

Table S269.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 8(5Q21.3) MUTATED 109 5 13 39 27 6 7 2
DEL PEAK 8(5Q21.3) WILD-TYPE 37 74 87 92 151 6 144 29

Figure S269.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 8.19e-48 (Fisher's exact test), Q value = 5.2e-45

Table S270.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 8(5Q21.3) MUTATED 51 133 24
DEL PEAK 8(5Q21.3) WILD-TYPE 285 72 263

Figure S270.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 8(5q21.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 8.31e-41 (Fisher's exact test), Q value = 5.2e-38

Table S271.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 8(5Q21.3) MUTATED 27 46 141
DEL PEAK 8(5Q21.3) WILD-TYPE 174 383 108

Figure S271.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 8(5q21.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 6.9e-54 (Fisher's exact test), Q value = 4.4e-51

Table S272.  Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 8(5Q21.3) MUTATED 136 63 15
DEL PEAK 8(5Q21.3) WILD-TYPE 68 553 44

Figure S272.  Get High-res Image Gene #35: 'Del Peak 8(5q21.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 9(6p25.3) mutation analysis' versus 'CN_CNMF'

P value = 8.51e-07 (Chi-square test), Q value = 0.00026

Table S273.  Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 9(6P25.3) MUTATED 35 63 12 47 13
DEL PEAK 9(6P25.3) WILD-TYPE 312 159 60 176 36

Figure S273.  Get High-res Image Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 9(6p25.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.71e-05 (Chi-square test), Q value = 0.011

Table S274.  Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 9(6P25.3) MUTATED 24 13 19 41 2 14
DEL PEAK 9(6P25.3) WILD-TYPE 77 126 74 96 38 83

Figure S274.  Get High-res Image Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 9(6p25.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 0.000221 (Chi-square test), Q value = 0.045

Table S275.  Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 9(6P25.3) MUTATED 31 5 18 20 52 0 24 3
DEL PEAK 9(6P25.3) WILD-TYPE 115 74 82 111 126 12 127 28

Figure S275.  Get High-res Image Gene #36: 'Del Peak 9(6p25.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 10(6q15) mutation analysis' versus 'MRNA_CNMF'

P value = 1.55e-06 (Chi-square test), Q value = 0.00045

Table S276.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 10(6Q15) MUTATED 64 13 7 17 29 4 22 16
DEL PEAK 10(6Q15) WILD-TYPE 60 23 16 78 43 16 81 24

Figure S276.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 10(6q15) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.00137 (Fisher's exact test), Q value = 0.23

Table S277.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 10(6Q15) MUTATED 49 26 97
DEL PEAK 10(6Q15) WILD-TYPE 91 99 151

Figure S277.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 10(6q15) mutation analysis' versus 'CN_CNMF'

P value = 6.83e-28 (Chi-square test), Q value = 4.1e-25

Table S278.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 10(6Q15) MUTATED 73 133 19 45 31
DEL PEAK 10(6Q15) WILD-TYPE 274 89 53 178 18

Figure S278.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 10(6q15) mutation analysis' versus 'METHLYATION_CNMF'

P value = 3.78e-08 (Chi-square test), Q value = 1.3e-05

Table S279.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 10(6Q15) MUTATED 19 43 34 70 7 19
DEL PEAK 10(6Q15) WILD-TYPE 82 96 59 67 33 78

Figure S279.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 10(6q15) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.63e-08 (Chi-square test), Q value = 2.9e-05

Table S280.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 10(6Q15) MUTATED 31 21 38 43 94 2 42 9
DEL PEAK 10(6Q15) WILD-TYPE 115 58 62 88 84 10 109 22

Figure S280.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 10(6q15) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.52e-05 (Fisher's exact test), Q value = 0.0061

Table S281.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 10(6Q15) MUTATED 143 50 87
DEL PEAK 10(6Q15) WILD-TYPE 193 155 200

Figure S281.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 10(6q15) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00125 (Fisher's exact test), Q value = 0.21

Table S282.  Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 10(6Q15) MUTATED 47 226 20
DEL PEAK 10(6Q15) WILD-TYPE 157 390 39

Figure S282.  Get High-res Image Gene #37: 'Del Peak 10(6q15) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 11(6q27) mutation analysis' versus 'CN_CNMF'

P value = 2.87e-14 (Chi-square test), Q value = 1.4e-11

Table S283.  Gene #38: 'Del Peak 11(6q27) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 11(6Q27) MUTATED 76 112 19 76 31
DEL PEAK 11(6Q27) WILD-TYPE 271 110 53 147 18

Figure S283.  Get High-res Image Gene #38: 'Del Peak 11(6q27) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 12(7p22.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.000366 (Fisher's exact test), Q value = 0.07

Table S284.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 12(7P22.3) MUTATED 8 27 40
DEL PEAK 12(7P22.3) WILD-TYPE 132 98 208

Figure S284.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 12(7p22.3) mutation analysis' versus 'CN_CNMF'

P value = 2.06e-15 (Chi-square test), Q value = 1e-12

Table S285.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 12(7P22.3) MUTATED 11 47 3 54 3
DEL PEAK 12(7P22.3) WILD-TYPE 336 175 69 169 46

Figure S285.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 12(7p22.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 5.89e-07 (Chi-square test), Q value = 0.00018

Table S286.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 12(7P22.3) MUTATED 25 6 12 18 2 2
DEL PEAK 12(7P22.3) WILD-TYPE 76 133 81 119 38 95

Figure S286.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 12(7p22.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.76e-07 (Chi-square test), Q value = 0.00026

Table S287.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 12(7P22.3) MUTATED 36 3 13 24 31 1 5 2
DEL PEAK 12(7P22.3) WILD-TYPE 110 76 87 107 147 11 146 29

Figure S287.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 12(7p22.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 7.9e-09 (Fisher's exact test), Q value = 2.9e-06

Table S288.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 12(7P22.3) MUTATED 55 46 14
DEL PEAK 12(7P22.3) WILD-TYPE 281 159 273

Figure S288.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 12(7p22.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.7e-10 (Fisher's exact test), Q value = 1.5e-07

Table S289.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 12(7P22.3) MUTATED 9 44 61
DEL PEAK 12(7P22.3) WILD-TYPE 192 385 188

Figure S289.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 12(7p22.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.01e-09 (Fisher's exact test), Q value = 1.5e-06

Table S290.  Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 12(7P22.3) MUTATED 51 51 12
DEL PEAK 12(7P22.3) WILD-TYPE 153 565 47

Figure S290.  Get High-res Image Gene #39: 'Del Peak 12(7p22.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 13(7q36.1) mutation analysis' versus 'CN_CNMF'

P value = 5.25e-10 (Chi-square test), Q value = 2.1e-07

Table S291.  Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 13(7Q36.1) MUTATED 32 61 13 64 4
DEL PEAK 13(7Q36.1) WILD-TYPE 315 161 59 159 45

Figure S291.  Get High-res Image Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 13(7q36.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 0.00128 (Chi-square test), Q value = 0.22

Table S292.  Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 13(7Q36.1) MUTATED 35 11 16 44 36 1 22 4
DEL PEAK 13(7Q36.1) WILD-TYPE 111 68 84 87 142 11 129 27

Figure S292.  Get High-res Image Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 13(7q36.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.52e-05 (Fisher's exact test), Q value = 0.0061

Table S293.  Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 13(7Q36.1) MUTATED 85 50 34
DEL PEAK 13(7Q36.1) WILD-TYPE 251 155 253

Figure S293.  Get High-res Image Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 13(7q36.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 5.22e-09 (Fisher's exact test), Q value = 2e-06

Table S294.  Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 13(7Q36.1) MUTATED 22 65 80
DEL PEAK 13(7Q36.1) WILD-TYPE 179 364 169

Figure S294.  Get High-res Image Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 13(7q36.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.08e-06 (Fisher's exact test), Q value = 0.00032

Table S295.  Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 13(7Q36.1) MUTATED 55 90 22
DEL PEAK 13(7Q36.1) WILD-TYPE 149 526 37

Figure S295.  Get High-res Image Gene #40: 'Del Peak 13(7q36.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 14(8p23.2) mutation analysis' versus 'MRNA_CNMF'

P value = 1.08e-09 (Chi-square test), Q value = 4.3e-07

Table S296.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 14(8P23.2) MUTATED 81 16 13 64 47 13 26 17
DEL PEAK 14(8P23.2) WILD-TYPE 43 20 10 31 25 7 77 23

Figure S296.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 14(8p23.2) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 2.53e-05 (Fisher's exact test), Q value = 0.0061

Table S297.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 14(8P23.2) MUTATED 57 86 134
DEL PEAK 14(8P23.2) WILD-TYPE 83 39 114

Figure S297.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 14(8p23.2) mutation analysis' versus 'CN_CNMF'

P value = 7.63e-31 (Chi-square test), Q value = 4.6e-28

Table S298.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 14(8P23.2) MUTATED 117 148 15 161 40
DEL PEAK 14(8P23.2) WILD-TYPE 230 74 57 62 9

Figure S298.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 14(8p23.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.19e-13 (Chi-square test), Q value = 5.6e-11

Table S299.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 14(8P23.2) MUTATED 68 35 48 95 18 41
DEL PEAK 14(8P23.2) WILD-TYPE 33 104 45 42 22 56

Figure S299.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 14(8p23.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.55e-19 (Chi-square test), Q value = 8.6e-17

Table S300.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 14(8P23.2) MUTATED 93 28 56 90 117 11 35 13
DEL PEAK 14(8P23.2) WILD-TYPE 53 51 44 41 61 1 116 18

Figure S300.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 14(8p23.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.41e-10 (Fisher's exact test), Q value = 5.9e-08

Table S301.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 14(8P23.2) MUTATED 195 138 110
DEL PEAK 14(8P23.2) WILD-TYPE 141 67 177

Figure S301.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 14(8p23.2) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 6.22e-08 (Fisher's exact test), Q value = 2.1e-05

Table S302.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 14(8P23.2) MUTATED 86 208 168
DEL PEAK 14(8P23.2) WILD-TYPE 115 221 81

Figure S302.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 14(8p23.2) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.37e-09 (Fisher's exact test), Q value = 9.2e-07

Table S303.  Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 14(8P23.2) MUTATED 143 282 37
DEL PEAK 14(8P23.2) WILD-TYPE 61 334 22

Figure S303.  Get High-res Image Gene #41: 'Del Peak 14(8p23.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 15(8p11.21) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000126 (Chi-square test), Q value = 0.027

Table S304.  Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 15(8P11.21) MUTATED 24 5 4 21 27 7 7 7
DEL PEAK 15(8P11.21) WILD-TYPE 100 31 19 74 45 13 96 33

Figure S304.  Get High-res Image Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 15(8p11.21) mutation analysis' versus 'CN_CNMF'

P value = 6.19e-11 (Chi-square test), Q value = 2.6e-08

Table S305.  Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 15(8P11.21) MUTATED 45 47 7 74 0
DEL PEAK 15(8P11.21) WILD-TYPE 302 175 65 149 49

Figure S305.  Get High-res Image Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 15(8p11.21) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.66e-09 (Chi-square test), Q value = 6.5e-07

Table S306.  Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 15(8P11.21) MUTATED 31 12 12 51 29 6 14 6
DEL PEAK 15(8P11.21) WILD-TYPE 115 67 88 80 149 6 137 25

Figure S306.  Get High-res Image Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 15(8p11.21) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000287 (Fisher's exact test), Q value = 0.056

Table S307.  Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 15(8P11.21) MUTATED 68 56 37
DEL PEAK 15(8P11.21) WILD-TYPE 268 149 250

Figure S307.  Get High-res Image Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 15(8p11.21) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 6.07e-06 (Fisher's exact test), Q value = 0.0016

Table S308.  Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 15(8P11.21) MUTATED 57 93 20
DEL PEAK 15(8P11.21) WILD-TYPE 147 523 39

Figure S308.  Get High-res Image Gene #42: 'Del Peak 15(8p11.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 16(9p21.3) mutation analysis' versus 'MRNA_CNMF'

P value = 2.43e-06 (Chi-square test), Q value = 0.00067

Table S309.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 16(9P21.3) MUTATED 62 13 9 29 38 8 23 5
DEL PEAK 16(9P21.3) WILD-TYPE 62 23 14 66 34 12 80 35

Figure S309.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 16(9p21.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.00076 (Fisher's exact test), Q value = 0.14

Table S310.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 16(9P21.3) MUTATED 35 43 109
DEL PEAK 16(9P21.3) WILD-TYPE 105 82 139

Figure S310.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 16(9p21.3) mutation analysis' versus 'CN_CNMF'

P value = 1.11e-29 (Chi-square test), Q value = 6.7e-27

Table S311.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 16(9P21.3) MUTATED 44 122 17 110 14
DEL PEAK 16(9P21.3) WILD-TYPE 303 100 55 113 35

Figure S311.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 16(9p21.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.21e-15 (Chi-square test), Q value = 1.1e-12

Table S312.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 16(9P21.3) MUTATED 37 14 38 72 8 15
DEL PEAK 16(9P21.3) WILD-TYPE 64 125 55 65 32 82

Figure S312.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 16(9p21.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.21e-10 (Chi-square test), Q value = 3.3e-07

Table S313.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 16(9P21.3) MUTATED 49 20 34 62 88 5 25 5
DEL PEAK 16(9P21.3) WILD-TYPE 97 59 66 69 90 7 126 26

Figure S313.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 16(9p21.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6.11e-09 (Fisher's exact test), Q value = 2.3e-06

Table S314.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 16(9P21.3) MUTATED 146 81 61
DEL PEAK 16(9P21.3) WILD-TYPE 190 124 226

Figure S314.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 16(9p21.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 7.71e-10 (Fisher's exact test), Q value = 3.1e-07

Table S315.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 16(9P21.3) MUTATED 35 144 114
DEL PEAK 16(9P21.3) WILD-TYPE 166 285 135

Figure S315.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 16(9p21.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7.43e-05 (Fisher's exact test), Q value = 0.017

Table S316.  Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 16(9P21.3) MUTATED 86 178 29
DEL PEAK 16(9P21.3) WILD-TYPE 118 438 30

Figure S316.  Get High-res Image Gene #43: 'Del Peak 16(9p21.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 17(9q21.11) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.00029 (Fisher's exact test), Q value = 0.057

Table S317.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 17(9Q21.11) MUTATED 24 47 81
DEL PEAK 17(9Q21.11) WILD-TYPE 116 78 167

Figure S317.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 17(9q21.11) mutation analysis' versus 'CN_CNMF'

P value = 3.41e-16 (Chi-square test), Q value = 1.8e-13

Table S318.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 17(9Q21.11) MUTATED 41 77 17 97 14
DEL PEAK 17(9Q21.11) WILD-TYPE 306 145 55 126 35

Figure S318.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 17(9q21.11) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.19e-10 (Chi-square test), Q value = 5e-08

Table S319.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 17(9Q21.11) MUTATED 38 10 23 54 4 18
DEL PEAK 17(9Q21.11) WILD-TYPE 63 129 70 83 36 79

Figure S319.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 17(9q21.11) mutation analysis' versus 'RPPA_CNMF'

P value = 1.04e-05 (Fisher's exact test), Q value = 0.0026

Table S320.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 17(9Q21.11) MUTATED 65 32 22
DEL PEAK 17(9Q21.11) WILD-TYPE 82 101 95

Figure S320.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 17(9q21.11) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.69e-06 (Chi-square test), Q value = 0.00074

Table S321.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 17(9Q21.11) MUTATED 54 11 28 41 64 5 22 4
DEL PEAK 17(9Q21.11) WILD-TYPE 92 68 72 90 114 7 129 27

Figure S321.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 17(9q21.11) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.33e-06 (Fisher's exact test), Q value = 0.00064

Table S322.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 17(9Q21.11) MUTATED 104 75 50
DEL PEAK 17(9Q21.11) WILD-TYPE 232 130 237

Figure S322.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 17(9q21.11) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 7.81e-09 (Fisher's exact test), Q value = 2.9e-06

Table S323.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 17(9Q21.11) MUTATED 31 103 100
DEL PEAK 17(9Q21.11) WILD-TYPE 170 326 149

Figure S323.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 17(9q21.11) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.56e-09 (Fisher's exact test), Q value = 6.1e-07

Table S324.  Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 17(9Q21.11) MUTATED 88 126 20
DEL PEAK 17(9Q21.11) WILD-TYPE 116 490 39

Figure S324.  Get High-res Image Gene #44: 'Del Peak 17(9q21.11) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 18(10q23.31) mutation analysis' versus 'MRNA_CNMF'

P value = 4.09e-05 (Chi-square test), Q value = 0.0097

Table S325.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 18(10Q23.31) MUTATED 36 7 7 45 20 7 22 2
DEL PEAK 18(10Q23.31) WILD-TYPE 88 29 16 50 52 13 81 38

Figure S325.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 9.57e-05 (Fisher's exact test), Q value = 0.021

Table S326.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 18(10Q23.31) MUTATED 26 53 67
DEL PEAK 18(10Q23.31) WILD-TYPE 114 72 181

Figure S326.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 18(10q23.31) mutation analysis' versus 'CN_CNMF'

P value = 3.83e-20 (Chi-square test), Q value = 2.2e-17

Table S327.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 18(10Q23.31) MUTATED 45 72 17 113 14
DEL PEAK 18(10Q23.31) WILD-TYPE 302 150 55 110 35

Figure S327.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.75e-12 (Chi-square test), Q value = 2.1e-09

Table S328.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 18(10Q23.31) MUTATED 55 22 23 53 7 15
DEL PEAK 18(10Q23.31) WILD-TYPE 46 117 70 84 33 82

Figure S328.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'RPPA_CNMF'

P value = 1.9e-07 (Fisher's exact test), Q value = 6.2e-05

Table S329.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 18(10Q23.31) MUTATED 67 30 19
DEL PEAK 18(10Q23.31) WILD-TYPE 80 103 98

Figure S329.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 7.37e-05 (Fisher's exact test), Q value = 0.017

Table S330.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 18(10Q23.31) MUTATED 45 18 53
DEL PEAK 18(10Q23.31) WILD-TYPE 116 92 73

Figure S330.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 18(10q23.31) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 5.67e-13 (Chi-square test), Q value = 2.6e-10

Table S331.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 18(10Q23.31) MUTATED 72 13 23 50 61 3 22 0
DEL PEAK 18(10Q23.31) WILD-TYPE 74 66 77 81 117 9 129 31

Figure S331.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6.86e-09 (Fisher's exact test), Q value = 2.6e-06

Table S332.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 18(10Q23.31) MUTATED 97 92 55
DEL PEAK 18(10Q23.31) WILD-TYPE 239 113 232

Figure S332.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 18(10q23.31) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 4.31e-09 (Fisher's exact test), Q value = 1.6e-06

Table S333.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 18(10Q23.31) MUTATED 41 101 109
DEL PEAK 18(10Q23.31) WILD-TYPE 160 328 140

Figure S333.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 18(10q23.31) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.34e-09 (Fisher's exact test), Q value = 1.7e-06

Table S334.  Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 18(10Q23.31) MUTATED 94 141 16
DEL PEAK 18(10Q23.31) WILD-TYPE 110 475 43

Figure S334.  Get High-res Image Gene #45: 'Del Peak 18(10q23.31) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 19(10q26.3) mutation analysis' versus 'MRNA_CNMF'

P value = 2.88e-08 (Chi-square test), Q value = 1e-05

Table S335.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 19(10Q26.3) MUTATED 38 9 8 52 21 6 16 3
DEL PEAK 19(10Q26.3) WILD-TYPE 86 27 15 43 51 14 87 37

Figure S335.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1.49e-07 (Fisher's exact test), Q value = 4.9e-05

Table S336.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 19(10Q26.3) MUTATED 22 59 72
DEL PEAK 19(10Q26.3) WILD-TYPE 118 66 176

Figure S336.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 19(10q26.3) mutation analysis' versus 'CN_CNMF'

P value = 2.23e-22 (Chi-square test), Q value = 1.3e-19

Table S337.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 19(10Q26.3) MUTATED 45 77 15 116 11
DEL PEAK 19(10Q26.3) WILD-TYPE 302 145 57 107 38

Figure S337.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.07e-12 (Chi-square test), Q value = 9.4e-10

Table S338.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 19(10Q26.3) MUTATED 57 18 28 45 8 17
DEL PEAK 19(10Q26.3) WILD-TYPE 44 121 65 92 32 80

Figure S338.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'RPPA_CNMF'

P value = 3.06e-08 (Fisher's exact test), Q value = 1.1e-05

Table S339.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 19(10Q26.3) MUTATED 72 27 24
DEL PEAK 19(10Q26.3) WILD-TYPE 75 106 93

Figure S339.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 8.25e-07 (Fisher's exact test), Q value = 0.00025

Table S340.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 19(10Q26.3) MUTATED 45 18 60
DEL PEAK 19(10Q26.3) WILD-TYPE 116 92 66

Figure S340.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 19(10q26.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.38e-15 (Chi-square test), Q value = 1.2e-12

Table S341.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 19(10Q26.3) MUTATED 74 12 21 57 59 2 20 2
DEL PEAK 19(10Q26.3) WILD-TYPE 72 67 79 74 119 10 131 29

Figure S341.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 9.81e-14 (Fisher's exact test), Q value = 4.7e-11

Table S342.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 19(10Q26.3) MUTATED 100 100 47
DEL PEAK 19(10Q26.3) WILD-TYPE 236 105 240

Figure S342.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 19(10q26.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.74e-13 (Fisher's exact test), Q value = 1.7e-10

Table S343.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 19(10Q26.3) MUTATED 39 95 118
DEL PEAK 19(10Q26.3) WILD-TYPE 162 334 131

Figure S343.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 19(10q26.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 4.77e-12 (Fisher's exact test), Q value = 2.1e-09

Table S344.  Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 19(10Q26.3) MUTATED 96 132 24
DEL PEAK 19(10Q26.3) WILD-TYPE 108 484 35

Figure S344.  Get High-res Image Gene #46: 'Del Peak 19(10q26.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 20(11p15.5) mutation analysis' versus 'MRNA_CNMF'

P value = 1.34e-06 (Chi-square test), Q value = 0.00039

Table S345.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 20(11P15.5) MUTATED 33 8 3 45 32 7 15 8
DEL PEAK 20(11P15.5) WILD-TYPE 91 28 20 50 40 13 88 32

Figure S345.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1.62e-07 (Fisher's exact test), Q value = 5.3e-05

Table S346.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 20(11P15.5) MUTATED 29 62 60
DEL PEAK 20(11P15.5) WILD-TYPE 111 63 188

Figure S346.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 20(11p15.5) mutation analysis' versus 'CN_CNMF'

P value = 5.01e-36 (Chi-square test), Q value = 3.1e-33

Table S347.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 20(11P15.5) MUTATED 35 69 15 134 9
DEL PEAK 20(11P15.5) WILD-TYPE 312 153 57 89 40

Figure S347.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.96e-12 (Chi-square test), Q value = 8.9e-10

Table S348.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 20(11P15.5) MUTATED 54 15 27 42 10 14
DEL PEAK 20(11P15.5) WILD-TYPE 47 124 66 95 30 83

Figure S348.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'RPPA_CNMF'

P value = 1.27e-09 (Fisher's exact test), Q value = 5e-07

Table S349.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 20(11P15.5) MUTATED 76 26 25
DEL PEAK 20(11P15.5) WILD-TYPE 71 107 92

Figure S349.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.65e-06 (Fisher's exact test), Q value = 0.00047

Table S350.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 20(11P15.5) MUTATED 38 26 63
DEL PEAK 20(11P15.5) WILD-TYPE 123 84 63

Figure S350.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 20(11p15.5) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.13e-14 (Chi-square test), Q value = 5.6e-12

Table S351.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 20(11P15.5) MUTATED 71 19 19 57 56 3 12 6
DEL PEAK 20(11P15.5) WILD-TYPE 75 60 81 74 122 9 139 25

Figure S351.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.1e-13 (Fisher's exact test), Q value = 5.2e-11

Table S352.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 20(11P15.5) MUTATED 84 104 55
DEL PEAK 20(11P15.5) WILD-TYPE 252 101 232

Figure S352.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 20(11p15.5) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.25e-17 (Fisher's exact test), Q value = 1.7e-14

Table S353.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 20(11P15.5) MUTATED 38 88 125
DEL PEAK 20(11P15.5) WILD-TYPE 163 341 124

Figure S353.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 20(11p15.5) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.07e-17 (Fisher's exact test), Q value = 1.6e-14

Table S354.  Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 20(11P15.5) MUTATED 106 123 22
DEL PEAK 20(11P15.5) WILD-TYPE 98 493 37

Figure S354.  Get High-res Image Gene #47: 'Del Peak 20(11p15.5) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 21(11q13.1) mutation analysis' versus 'CN_CNMF'

P value = 3.51e-17 (Chi-square test), Q value = 1.9e-14

Table S355.  Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 21(11Q13.1) MUTATED 30 88 23 44 9
DEL PEAK 21(11Q13.1) WILD-TYPE 317 134 49 179 40

Figure S355.  Get High-res Image Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 21(11q13.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.39e-06 (Chi-square test), Q value = 0.0012

Table S356.  Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 21(11Q13.1) MUTATED 18 19 26 47 7 8
DEL PEAK 21(11Q13.1) WILD-TYPE 83 120 67 90 33 89

Figure S356.  Get High-res Image Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 21(11q13.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.05e-06 (Chi-square test), Q value = 0.00031

Table S357.  Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 21(11Q13.1) MUTATED 22 16 21 27 68 2 20 4
DEL PEAK 21(11Q13.1) WILD-TYPE 124 63 79 104 110 10 131 27

Figure S357.  Get High-res Image Gene #48: 'Del Peak 21(11q13.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 22(11q23.2) mutation analysis' versus 'MRNA_CNMF'

P value = 2.08e-08 (Chi-square test), Q value = 7.4e-06

Table S358.  Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 22(11Q23.2) MUTATED 92 21 12 36 37 11 33 22
DEL PEAK 22(11Q23.2) WILD-TYPE 32 15 11 59 35 9 70 18

Figure S358.  Get High-res Image Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 22(11q23.2) mutation analysis' versus 'CN_CNMF'

P value = 3.22e-42 (Chi-square test), Q value = 2e-39

Table S359.  Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 22(11Q23.2) MUTATED 93 193 35 111 17
DEL PEAK 22(11Q23.2) WILD-TYPE 254 29 37 112 32

Figure S359.  Get High-res Image Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 22(11q23.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 7.68e-12 (Chi-square test), Q value = 3.4e-09

Table S360.  Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 22(11Q23.2) MUTATED 41 49 57 98 20 29
DEL PEAK 22(11Q23.2) WILD-TYPE 60 90 36 39 20 68

Figure S360.  Get High-res Image Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 22(11q23.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.24e-14 (Chi-square test), Q value = 6.1e-12

Table S361.  Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 22(11Q23.2) MUTATED 53 40 44 72 135 7 49 15
DEL PEAK 22(11Q23.2) WILD-TYPE 93 39 56 59 43 5 102 16

Figure S361.  Get High-res Image Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 22(11q23.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000718 (Fisher's exact test), Q value = 0.13

Table S362.  Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 22(11Q23.2) MUTATED 192 83 140
DEL PEAK 22(11Q23.2) WILD-TYPE 144 122 147

Figure S362.  Get High-res Image Gene #49: 'Del Peak 22(11q23.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 23(11q25) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000243 (Chi-square test), Q value = 0.049

Table S363.  Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 23(11Q25) MUTATED 79 20 10 44 37 12 31 20
DEL PEAK 23(11Q25) WILD-TYPE 45 16 13 51 35 8 72 20

Figure S363.  Get High-res Image Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 23(11q25) mutation analysis' versus 'CN_CNMF'

P value = 6.15e-38 (Chi-square test), Q value = 3.8e-35

Table S364.  Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 23(11Q25) MUTATED 81 177 34 114 15
DEL PEAK 23(11Q25) WILD-TYPE 266 45 38 109 34

Figure S364.  Get High-res Image Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 23(11q25) mutation analysis' versus 'METHLYATION_CNMF'

P value = 9.89e-09 (Chi-square test), Q value = 3.6e-06

Table S365.  Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 23(11Q25) MUTATED 46 42 53 86 16 28
DEL PEAK 23(11Q25) WILD-TYPE 55 97 40 51 24 69

Figure S365.  Get High-res Image Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 23(11q25) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.49e-09 (Chi-square test), Q value = 1.3e-06

Table S366.  Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 23(11Q25) MUTATED 62 39 38 67 119 6 44 14
DEL PEAK 23(11Q25) WILD-TYPE 84 40 62 64 59 6 107 17

Figure S366.  Get High-res Image Gene #50: 'Del Peak 23(11q25) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 24(12p13.1) mutation analysis' versus 'CN_CNMF'

P value = 0.000979 (Chi-square test), Q value = 0.17

Table S367.  Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 24(12P13.1) MUTATED 40 46 11 54 6
DEL PEAK 24(12P13.1) WILD-TYPE 307 176 61 169 43

Figure S367.  Get High-res Image Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 24(12p13.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 0.000767 (Fisher's exact test), Q value = 0.14

Table S368.  Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 24(12P13.1) MUTATED 30 60 63
DEL PEAK 24(12P13.1) WILD-TYPE 171 369 186

Figure S368.  Get High-res Image Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 24(12p13.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7.62e-05 (Fisher's exact test), Q value = 0.017

Table S369.  Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 24(12P13.1) MUTATED 50 85 18
DEL PEAK 24(12P13.1) WILD-TYPE 154 531 41

Figure S369.  Get High-res Image Gene #51: 'Del Peak 24(12p13.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 25(12q24.21) mutation analysis' versus 'MRNA_CNMF'

P value = 9.6e-11 (Chi-square test), Q value = 4e-08

Table S370.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 25(12Q24.21) MUTATED 17 5 3 41 22 3 4 5
DEL PEAK 25(12Q24.21) WILD-TYPE 107 31 20 54 50 17 99 35

Figure S370.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 2.5e-10 (Fisher's exact test), Q value = 1e-07

Table S371.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 25(12Q24.21) MUTATED 14 51 35
DEL PEAK 25(12Q24.21) WILD-TYPE 126 74 213

Figure S371.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 25(12q24.21) mutation analysis' versus 'CN_CNMF'

P value = 2.33e-15 (Chi-square test), Q value = 1.2e-12

Table S372.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 25(12Q24.21) MUTATED 38 30 16 85 5
DEL PEAK 25(12Q24.21) WILD-TYPE 309 192 56 138 44

Figure S372.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.68e-14 (Chi-square test), Q value = 1.3e-11

Table S373.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 25(12Q24.21) MUTATED 48 13 14 20 2 14
DEL PEAK 25(12Q24.21) WILD-TYPE 53 126 79 117 38 83

Figure S373.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000209 (Fisher's exact test), Q value = 0.043

Table S374.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 25(12Q24.21) MUTATED 44 14 21
DEL PEAK 25(12Q24.21) WILD-TYPE 103 119 96

Figure S374.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 1.05e-06 (Fisher's exact test), Q value = 0.00031

Table S375.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 25(12Q24.21) MUTATED 22 12 45
DEL PEAK 25(12Q24.21) WILD-TYPE 139 98 81

Figure S375.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 25(12q24.21) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 2.93e-13 (Chi-square test), Q value = 1.4e-10

Table S376.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 25(12Q24.21) MUTATED 58 10 8 31 28 2 9 4
DEL PEAK 25(12Q24.21) WILD-TYPE 88 69 92 100 150 10 142 27

Figure S376.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 6.62e-14 (Fisher's exact test), Q value = 3.2e-11

Table S377.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 25(12Q24.21) MUTATED 45 76 29
DEL PEAK 25(12Q24.21) WILD-TYPE 291 129 258

Figure S377.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 25(12q24.21) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 6.79e-11 (Fisher's exact test), Q value = 2.9e-08

Table S378.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 25(12Q24.21) MUTATED 30 51 83
DEL PEAK 25(12Q24.21) WILD-TYPE 171 378 166

Figure S378.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 25(12q24.21) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.5e-12 (Fisher's exact test), Q value = 6.8e-10

Table S379.  Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 25(12Q24.21) MUTATED 71 75 18
DEL PEAK 25(12Q24.21) WILD-TYPE 133 541 41

Figure S379.  Get High-res Image Gene #52: 'Del Peak 25(12q24.21) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 26(13q14.2) mutation analysis' versus 'MRNA_CNMF'

P value = 2.15e-05 (Chi-square test), Q value = 0.0054

Table S380.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 26(13Q14.2) MUTATED 74 13 7 55 39 9 31 13
DEL PEAK 26(13Q14.2) WILD-TYPE 50 23 16 40 33 11 72 27

Figure S380.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 26(13q14.2) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 4.23e-05 (Fisher's exact test), Q value = 0.0099

Table S381.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 26(13Q14.2) MUTATED 46 75 120
DEL PEAK 26(13Q14.2) WILD-TYPE 94 50 128

Figure S381.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 26(13q14.2) mutation analysis' versus 'CN_CNMF'

P value = 7.07e-28 (Chi-square test), Q value = 4.2e-25

Table S382.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 26(13Q14.2) MUTATED 73 138 41 130 31
DEL PEAK 26(13Q14.2) WILD-TYPE 274 84 31 93 18

Figure S382.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 26(13q14.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.81e-08 (Chi-square test), Q value = 6.5e-06

Table S383.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 26(13Q14.2) MUTATED 61 39 50 75 11 32
DEL PEAK 26(13Q14.2) WILD-TYPE 40 100 43 62 29 65

Figure S383.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 26(13q14.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.14e-07 (Chi-square test), Q value = 3.8e-05

Table S384.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 26(13Q14.2) MUTATED 83 28 36 74 101 6 52 6
DEL PEAK 26(13Q14.2) WILD-TYPE 63 51 64 57 77 6 99 25

Figure S384.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 26(13q14.2) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.22e-08 (Fisher's exact test), Q value = 1.1e-05

Table S385.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 26(13Q14.2) MUTATED 173 118 95
DEL PEAK 26(13Q14.2) WILD-TYPE 163 87 192

Figure S385.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 26(13q14.2) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.21e-08 (Fisher's exact test), Q value = 4.4e-06

Table S386.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 26(13Q14.2) MUTATED 61 193 146
DEL PEAK 26(13Q14.2) WILD-TYPE 140 236 103

Figure S386.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 26(13q14.2) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.27e-05 (Fisher's exact test), Q value = 0.0078

Table S387.  Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 26(13Q14.2) MUTATED 114 250 36
DEL PEAK 26(13Q14.2) WILD-TYPE 90 366 23

Figure S387.  Get High-res Image Gene #53: 'Del Peak 26(13q14.2) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 27(14q24.3) mutation analysis' versus 'MRNA_CNMF'

P value = 4e-13 (Chi-square test), Q value = 1.9e-10

Table S388.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 27(14Q24.3) MUTATED 51 8 4 57 22 10 9 8
DEL PEAK 27(14Q24.3) WILD-TYPE 73 28 19 38 50 10 94 32

Figure S388.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 1.56e-08 (Fisher's exact test), Q value = 5.6e-06

Table S389.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 27(14Q24.3) MUTATED 33 69 67
DEL PEAK 27(14Q24.3) WILD-TYPE 107 56 181

Figure S389.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 27(14q24.3) mutation analysis' versus 'CN_CNMF'

P value = 8.6e-37 (Chi-square test), Q value = 5.3e-34

Table S390.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 27(14Q24.3) MUTATED 42 76 14 143 19
DEL PEAK 27(14Q24.3) WILD-TYPE 305 146 58 80 30

Figure S390.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 3.5e-14 (Chi-square test), Q value = 1.7e-11

Table S391.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 27(14Q24.3) MUTATED 60 16 28 53 8 22
DEL PEAK 27(14Q24.3) WILD-TYPE 41 123 65 84 32 75

Figure S391.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'RPPA_CNMF'

P value = 5.29e-07 (Fisher's exact test), Q value = 0.00016

Table S392.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 27(14Q24.3) MUTATED 74 29 31
DEL PEAK 27(14Q24.3) WILD-TYPE 73 104 86

Figure S392.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 5.53e-06 (Fisher's exact test), Q value = 0.0014

Table S393.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 27(14Q24.3) MUTATED 45 25 64
DEL PEAK 27(14Q24.3) WILD-TYPE 116 85 62

Figure S393.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 27(14q24.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 1.13e-22 (Chi-square test), Q value = 6.6e-20

Table S394.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 27(14Q24.3) MUTATED 88 15 20 45 78 5 13 5
DEL PEAK 27(14Q24.3) WILD-TYPE 58 64 80 86 100 7 138 26

Figure S394.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1.09e-13 (Fisher's exact test), Q value = 5.2e-11

Table S395.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 27(14Q24.3) MUTATED 105 108 56
DEL PEAK 27(14Q24.3) WILD-TYPE 231 97 231

Figure S395.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 27(14q24.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.32e-17 (Fisher's exact test), Q value = 7.1e-15

Table S396.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 27(14Q24.3) MUTATED 46 98 135
DEL PEAK 27(14Q24.3) WILD-TYPE 155 331 114

Figure S396.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 27(14q24.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.16e-20 (Fisher's exact test), Q value = 1.2e-17

Table S397.  Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 27(14Q24.3) MUTATED 119 137 23
DEL PEAK 27(14Q24.3) WILD-TYPE 85 479 36

Figure S397.  Get High-res Image Gene #54: 'Del Peak 27(14q24.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 28(15q13.1) mutation analysis' versus 'MRNA_CNMF'

P value = 3.46e-07 (Chi-square test), Q value = 0.00011

Table S398.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 28(15Q13.1) MUTATED 41 11 7 56 33 10 22 7
DEL PEAK 28(15Q13.1) WILD-TYPE 83 25 16 39 39 10 81 33

Figure S398.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 7.57e-08 (Fisher's exact test), Q value = 2.6e-05

Table S399.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 28(15Q13.1) MUTATED 29 68 90
DEL PEAK 28(15Q13.1) WILD-TYPE 111 57 158

Figure S399.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 28(15q13.1) mutation analysis' versus 'CN_CNMF'

P value = 6.74e-31 (Chi-square test), Q value = 4.1e-28

Table S400.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 28(15Q13.1) MUTATED 56 68 35 143 13
DEL PEAK 28(15Q13.1) WILD-TYPE 291 154 37 80 36

Figure S400.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.2e-11 (Chi-square test), Q value = 5.3e-09

Table S401.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 28(15Q13.1) MUTATED 63 25 30 52 8 25
DEL PEAK 28(15Q13.1) WILD-TYPE 38 114 63 85 32 72

Figure S401.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000193 (Fisher's exact test), Q value = 0.04

Table S402.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 28(15Q13.1) MUTATED 76 39 38
DEL PEAK 28(15Q13.1) WILD-TYPE 71 94 79

Figure S402.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 2.32e-05 (Fisher's exact test), Q value = 0.0057

Table S403.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 28(15Q13.1) MUTATED 54 30 69
DEL PEAK 28(15Q13.1) WILD-TYPE 107 80 57

Figure S403.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 28(15q13.1) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.3e-14 (Chi-square test), Q value = 1.6e-11

Table S404.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 28(15Q13.1) MUTATED 83 14 30 62 59 7 30 3
DEL PEAK 28(15Q13.1) WILD-TYPE 63 65 70 69 119 5 121 28

Figure S404.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.47e-15 (Fisher's exact test), Q value = 1.7e-12

Table S405.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 28(15Q13.1) MUTATED 114 115 59
DEL PEAK 28(15Q13.1) WILD-TYPE 222 90 228

Figure S405.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 28(15q13.1) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 5.03e-16 (Fisher's exact test), Q value = 2.6e-13

Table S406.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 28(15Q13.1) MUTATED 40 124 137
DEL PEAK 28(15Q13.1) WILD-TYPE 161 305 112

Figure S406.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 28(15q13.1) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.01e-21 (Fisher's exact test), Q value = 5.8e-19

Table S407.  Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 28(15Q13.1) MUTATED 119 147 35
DEL PEAK 28(15Q13.1) WILD-TYPE 85 469 24

Figure S407.  Get High-res Image Gene #55: 'Del Peak 28(15q13.1) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 29(16q24.3) mutation analysis' versus 'MRNA_CNMF'

P value = 1.6e-16 (Chi-square test), Q value = 8.4e-14

Table S408.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 29(16Q24.3) MUTATED 86 26 18 26 45 13 88 34
DEL PEAK 29(16Q24.3) WILD-TYPE 38 10 5 69 27 7 15 6

Figure S408.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 2.51e-14 (Fisher's exact test), Q value = 1.2e-11

Table S409.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 29(16Q24.3) MUTATED 110 45 181
DEL PEAK 29(16Q24.3) WILD-TYPE 30 80 67

Figure S409.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 29(16q24.3) mutation analysis' versus 'CN_CNMF'

P value = 1.66e-14 (Chi-square test), Q value = 8.1e-12

Table S410.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 29(16Q24.3) MUTATED 244 153 59 93 38
DEL PEAK 29(16Q24.3) WILD-TYPE 103 69 13 130 11

Figure S410.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 4.47e-13 (Chi-square test), Q value = 2.1e-10

Table S411.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 29(16Q24.3) MUTATED 37 115 72 83 19 57
DEL PEAK 29(16Q24.3) WILD-TYPE 64 24 21 54 21 40

Figure S411.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'RPPA_CNMF'

P value = 1.14e-09 (Fisher's exact test), Q value = 4.5e-07

Table S412.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 29(16Q24.3) MUTATED 63 103 84
DEL PEAK 29(16Q24.3) WILD-TYPE 84 30 33

Figure S412.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 3.45e-11 (Fisher's exact test), Q value = 1.5e-08

Table S413.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 29(16Q24.3) MUTATED 119 83 48
DEL PEAK 29(16Q24.3) WILD-TYPE 42 27 78

Figure S413.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 29(16q24.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.6e-24 (Chi-square test), Q value = 2.1e-21

Table S414.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 29(16Q24.3) MUTATED 43 59 83 79 112 9 124 27
DEL PEAK 29(16Q24.3) WILD-TYPE 103 20 17 52 66 3 27 4

Figure S414.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.92e-21 (Fisher's exact test), Q value = 2.2e-18

Table S415.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 29(16Q24.3) MUTATED 235 76 225
DEL PEAK 29(16Q24.3) WILD-TYPE 101 129 62

Figure S415.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 29(16q24.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 9.18e-14 (Fisher's exact test), Q value = 4.4e-11

Table S416.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 29(16Q24.3) MUTATED 135 320 112
DEL PEAK 29(16Q24.3) WILD-TYPE 66 109 137

Figure S416.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 29(16q24.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.09e-20 (Fisher's exact test), Q value = 1.7e-17

Table S417.  Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 29(16Q24.3) MUTATED 78 458 31
DEL PEAK 29(16Q24.3) WILD-TYPE 126 158 28

Figure S417.  Get High-res Image Gene #56: 'Del Peak 29(16q24.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 30(17p12) mutation analysis' versus 'MRNA_CNMF'

P value = 2.14e-10 (Chi-square test), Q value = 8.8e-08

Table S418.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 30(17P12) MUTATED 80 27 14 60 60 15 32 24
DEL PEAK 30(17P12) WILD-TYPE 44 9 9 35 12 5 71 16

Figure S418.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'CN_CNMF'

P value = 9.33e-23 (Chi-square test), Q value = 5.5e-20

Table S419.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 30(17P12) MUTATED 142 170 35 172 27
DEL PEAK 30(17P12) WILD-TYPE 205 52 37 51 22

Figure S419.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'METHLYATION_CNMF'

P value = 7.4e-07 (Chi-square test), Q value = 0.00022

Table S420.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 30(17P12) MUTATED 61 62 64 103 21 46
DEL PEAK 30(17P12) WILD-TYPE 40 77 29 34 19 51

Figure S420.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'RPPA_CNMF'

P value = 8.07e-05 (Fisher's exact test), Q value = 0.018

Table S421.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 30(17P12) MUTATED 109 67 65
DEL PEAK 30(17P12) WILD-TYPE 38 66 52

Figure S421.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 8.8e-18 (Chi-square test), Q value = 4.8e-15

Table S422.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 30(17P12) MUTATED 88 50 59 108 127 9 46 15
DEL PEAK 30(17P12) WILD-TYPE 58 29 41 23 51 3 105 16

Figure S422.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.45e-06 (Fisher's exact test), Q value = 0.00042

Table S423.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 30(17P12) MUTATED 110 238 184
DEL PEAK 30(17P12) WILD-TYPE 91 191 65

Figure S423.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 30(17p12) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.78e-06 (Fisher's exact test), Q value = 5e-04

Table S424.  Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 30(17P12) MUTATED 141 342 49
DEL PEAK 30(17P12) WILD-TYPE 63 274 10

Figure S424.  Get High-res Image Gene #57: 'Del Peak 30(17p12) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 31(17q21.31) mutation analysis' versus 'MRNA_CNMF'

P value = 1.07e-14 (Chi-square test), Q value = 5.3e-12

Table S425.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 31(17Q21.31) MUTATED 29 16 7 50 50 9 13 16
DEL PEAK 31(17Q21.31) WILD-TYPE 95 20 16 45 22 11 90 24

Figure S425.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 3.91e-07 (Fisher's exact test), Q value = 0.00012

Table S426.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 31(17Q21.31) MUTATED 45 72 73
DEL PEAK 31(17Q21.31) WILD-TYPE 95 53 175

Figure S426.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 31(17q21.31) mutation analysis' versus 'CN_CNMF'

P value = 5.42e-22 (Chi-square test), Q value = 3.1e-19

Table S427.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 31(17Q21.31) MUTATED 79 69 18 139 10
DEL PEAK 31(17Q21.31) WILD-TYPE 268 153 54 84 39

Figure S427.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.19e-11 (Chi-square test), Q value = 5.3e-09

Table S428.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 31(17Q21.31) MUTATED 60 19 36 39 11 28
DEL PEAK 31(17Q21.31) WILD-TYPE 41 120 57 98 29 69

Figure S428.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'RPPA_CNMF'

P value = 1.86e-11 (Fisher's exact test), Q value = 8.1e-09

Table S429.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 31(17Q21.31) MUTATED 87 25 44
DEL PEAK 31(17Q21.31) WILD-TYPE 60 108 73

Figure S429.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 3.12e-11 (Fisher's exact test), Q value = 1.4e-08

Table S430.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 31(17Q21.31) MUTATED 42 33 81
DEL PEAK 31(17Q21.31) WILD-TYPE 119 77 45

Figure S430.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 31(17q21.31) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.1e-33 (Chi-square test), Q value = 1.9e-30

Table S431.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 31(17Q21.31) MUTATED 79 25 17 97 45 4 17 10
DEL PEAK 31(17Q21.31) WILD-TYPE 67 54 83 34 133 8 134 21

Figure S431.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5.94e-17 (Fisher's exact test), Q value = 3.1e-14

Table S432.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 31(17Q21.31) MUTATED 89 125 80
DEL PEAK 31(17Q21.31) WILD-TYPE 247 80 207

Figure S432.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 31(17q21.31) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.09e-14 (Fisher's exact test), Q value = 5.4e-12

Table S433.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 31(17Q21.31) MUTATED 59 109 138
DEL PEAK 31(17Q21.31) WILD-TYPE 142 320 111

Figure S433.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 31(17q21.31) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1.69e-16 (Fisher's exact test), Q value = 8.8e-14

Table S434.  Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 31(17Q21.31) MUTATED 112 159 35
DEL PEAK 31(17Q21.31) WILD-TYPE 92 457 24

Figure S434.  Get High-res Image Gene #58: 'Del Peak 31(17q21.31) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 32(18q23) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000347 (Chi-square test), Q value = 0.067

Table S435.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 32(18Q23) MUTATED 40 13 4 36 37 6 19 9
DEL PEAK 32(18Q23) WILD-TYPE 84 23 19 59 35 14 84 31

Figure S435.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 32(18q23) mutation analysis' versus 'CN_CNMF'

P value = 1.32e-15 (Chi-square test), Q value = 6.8e-13

Table S436.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 32(18Q23) MUTATED 58 84 28 111 12
DEL PEAK 32(18Q23) WILD-TYPE 289 138 44 112 37

Figure S436.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 32(18q23) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.2e-08 (Chi-square test), Q value = 4.4e-06

Table S437.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 32(18Q23) MUTATED 40 25 47 59 9 19
DEL PEAK 32(18Q23) WILD-TYPE 61 114 46 78 31 78

Figure S437.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 32(18q23) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.96e-08 (Chi-square test), Q value = 1.4e-05

Table S438.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 32(18Q23) MUTATED 55 20 22 70 58 6 32 6
DEL PEAK 32(18Q23) WILD-TYPE 91 59 78 61 120 6 119 25

Figure S438.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 32(18q23) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000848 (Fisher's exact test), Q value = 0.15

Table S439.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 32(18Q23) MUTATED 109 86 74
DEL PEAK 32(18Q23) WILD-TYPE 227 119 213

Figure S439.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 32(18q23) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 3.16e-05 (Fisher's exact test), Q value = 0.0076

Table S440.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 32(18Q23) MUTATED 48 131 108
DEL PEAK 32(18Q23) WILD-TYPE 153 298 141

Figure S440.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 32(18q23) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.024

Table S441.  Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 32(18Q23) MUTATED 86 174 27
DEL PEAK 32(18Q23) WILD-TYPE 118 442 32

Figure S441.  Get High-res Image Gene #59: 'Del Peak 32(18q23) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 33(19p13.3) mutation analysis' versus 'MRNA_CNMF'

P value = 5.99e-11 (Chi-square test), Q value = 2.6e-08

Table S442.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 33(19P13.3) MUTATED 53 11 6 53 37 6 12 6
DEL PEAK 33(19P13.3) WILD-TYPE 71 25 17 42 35 14 91 34

Figure S442.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 4.57e-08 (Fisher's exact test), Q value = 1.6e-05

Table S443.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 33(19P13.3) MUTATED 26 65 93
DEL PEAK 33(19P13.3) WILD-TYPE 114 60 155

Figure S443.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 33(19p13.3) mutation analysis' versus 'CN_CNMF'

P value = 1.25e-44 (Chi-square test), Q value = 7.9e-42

Table S444.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 33(19P13.3) MUTATED 30 112 11 136 16
DEL PEAK 33(19P13.3) WILD-TYPE 317 110 61 87 33

Figure S444.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'METHLYATION_CNMF'

P value = 6.53e-18 (Chi-square test), Q value = 3.6e-15

Table S445.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 33(19P13.3) MUTATED 52 9 22 67 6 24
DEL PEAK 33(19P13.3) WILD-TYPE 49 130 71 70 34 73

Figure S445.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'RPPA_CNMF'

P value = 3.03e-06 (Fisher's exact test), Q value = 0.00082

Table S446.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 33(19P13.3) MUTATED 79 40 31
DEL PEAK 33(19P13.3) WILD-TYPE 68 93 86

Figure S446.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 3.39e-05 (Fisher's exact test), Q value = 0.0081

Table S447.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 33(19P13.3) MUTATED 51 31 68
DEL PEAK 33(19P13.3) WILD-TYPE 110 79 58

Figure S447.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 33(19p13.3) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 6.34e-19 (Chi-square test), Q value = 3.5e-16

Table S448.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 33(19P13.3) MUTATED 79 17 24 59 81 7 13 7
DEL PEAK 33(19P13.3) WILD-TYPE 67 62 76 72 97 5 138 24

Figure S448.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.23e-13 (Fisher's exact test), Q value = 1.5e-10

Table S449.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 33(19P13.3) MUTATED 131 102 54
DEL PEAK 33(19P13.3) WILD-TYPE 205 103 233

Figure S449.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 33(19p13.3) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 7.8e-16 (Fisher's exact test), Q value = 4e-13

Table S450.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 33(19P13.3) MUTATED 40 119 135
DEL PEAK 33(19P13.3) WILD-TYPE 161 310 114

Figure S450.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 33(19p13.3) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2.16e-14 (Fisher's exact test), Q value = 1.1e-11

Table S451.  Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 33(19P13.3) MUTATED 113 156 25
DEL PEAK 33(19P13.3) WILD-TYPE 91 460 34

Figure S451.  Get High-res Image Gene #60: 'Del Peak 33(19p13.3) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 34(19q13.32) mutation analysis' versus 'MRNA_CNMF'

P value = 1.57e-06 (Chi-square test), Q value = 0.00045

Table S452.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 34(19Q13.32) MUTATED 24 7 3 23 29 1 7 3
DEL PEAK 34(19Q13.32) WILD-TYPE 100 29 20 72 43 19 96 37

Figure S452.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 8.8e-05 (Fisher's exact test), Q value = 0.019

Table S453.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 34(19Q13.32) MUTATED 12 36 49
DEL PEAK 34(19Q13.32) WILD-TYPE 128 89 199

Figure S453.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 34(19q13.32) mutation analysis' versus 'CN_CNMF'

P value = 4.48e-20 (Chi-square test), Q value = 2.5e-17

Table S454.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 34(19Q13.32) MUTATED 22 68 5 79 9
DEL PEAK 34(19Q13.32) WILD-TYPE 325 154 67 144 40

Figure S454.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'METHLYATION_CNMF'

P value = 1.52e-10 (Chi-square test), Q value = 6.3e-08

Table S455.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 34(19Q13.32) MUTATED 37 6 19 43 5 12
DEL PEAK 34(19Q13.32) WILD-TYPE 64 133 74 94 35 85

Figure S455.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'RPPA_CNMF'

P value = 0.000783 (Fisher's exact test), Q value = 0.14

Table S456.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 147 133 117
DEL PEAK 34(19Q13.32) MUTATED 44 20 15
DEL PEAK 34(19Q13.32) WILD-TYPE 103 113 102

Figure S456.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #5: 'RPPA_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'RPPA_CHIERARCHICAL'

P value = 4.95e-05 (Fisher's exact test), Q value = 0.011

Table S457.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 161 110 126
DEL PEAK 34(19Q13.32) MUTATED 27 11 41
DEL PEAK 34(19Q13.32) WILD-TYPE 134 99 85

Figure S457.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #6: 'RPPA_CHIERARCHICAL'

'Del Peak 34(19q13.32) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 4.12e-12 (Chi-square test), Q value = 1.8e-09

Table S458.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 34(19Q13.32) MUTATED 43 8 13 52 44 1 9 4
DEL PEAK 34(19Q13.32) WILD-TYPE 103 71 87 79 134 11 142 27

Figure S458.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3.57e-11 (Fisher's exact test), Q value = 1.5e-08

Table S459.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 34(19Q13.32) MUTATED 83 66 25
DEL PEAK 34(19Q13.32) WILD-TYPE 253 139 262

Figure S459.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 34(19q13.32) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.58e-10 (Fisher's exact test), Q value = 6.5e-08

Table S460.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 34(19Q13.32) MUTATED 21 68 85
DEL PEAK 34(19Q13.32) WILD-TYPE 180 361 164

Figure S460.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 34(19q13.32) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.16e-08 (Fisher's exact test), Q value = 1.1e-05

Table S461.  Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 34(19Q13.32) MUTATED 59 91 24
DEL PEAK 34(19Q13.32) WILD-TYPE 145 525 35

Figure S461.  Get High-res Image Gene #61: 'Del Peak 34(19q13.32) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 35(20p13) mutation analysis' versus 'MRNA_CNMF'

P value = 8.81e-06 (Chi-square test), Q value = 0.0023

Table S462.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 35(20P13) MUTATED 28 3 1 24 16 3 3 1
DEL PEAK 35(20P13) WILD-TYPE 96 33 22 71 56 17 100 39

Figure S462.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 35(20p13) mutation analysis' versus 'MRNA_CHIERARCHICAL'

P value = 0.000158 (Fisher's exact test), Q value = 0.033

Table S463.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 140 125 248
DEL PEAK 35(20P13) MUTATED 10 32 37
DEL PEAK 35(20P13) WILD-TYPE 130 93 211

Figure S463.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #2: 'MRNA_CHIERARCHICAL'

'Del Peak 35(20p13) mutation analysis' versus 'CN_CNMF'

P value = 2.59e-13 (Chi-square test), Q value = 1.2e-10

Table S464.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 35(20P13) MUTATED 18 36 5 61 14
DEL PEAK 35(20P13) WILD-TYPE 329 186 67 162 35

Figure S464.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 35(20p13) mutation analysis' versus 'METHLYATION_CNMF'

P value = 7.15e-09 (Chi-square test), Q value = 2.7e-06

Table S465.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 35(20P13) MUTATED 31 4 11 24 3 7
DEL PEAK 35(20P13) WILD-TYPE 70 135 82 113 37 90

Figure S465.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 35(20p13) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 3.27e-11 (Chi-square test), Q value = 1.4e-08

Table S466.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 35(20P13) MUTATED 42 4 8 24 41 1 4 1
DEL PEAK 35(20P13) WILD-TYPE 104 75 92 107 137 11 147 30

Figure S466.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 35(20p13) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2.43e-09 (Fisher's exact test), Q value = 9.4e-07

Table S467.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 35(20P13) MUTATED 50 56 19
DEL PEAK 35(20P13) WILD-TYPE 286 149 268

Figure S467.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

'Del Peak 35(20p13) mutation analysis' versus 'MIRSEQ_CNMF'

P value = 1.83e-11 (Fisher's exact test), Q value = 8e-09

Table S468.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 201 429 249
DEL PEAK 35(20P13) MUTATED 15 41 70
DEL PEAK 35(20P13) WILD-TYPE 186 388 179

Figure S468.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #9: 'MIRSEQ_CNMF'

'Del Peak 35(20p13) mutation analysis' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3.16e-09 (Fisher's exact test), Q value = 1.2e-06

Table S469.  Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 204 616 59
DEL PEAK 35(20P13) MUTATED 57 59 10
DEL PEAK 35(20P13) WILD-TYPE 147 557 49

Figure S469.  Get High-res Image Gene #62: 'Del Peak 35(20p13) mutation analysis' versus Clinical Feature #10: 'MIRSEQ_CHIERARCHICAL'

'Del Peak 36(21q11.2) mutation analysis' versus 'MRNA_CNMF'

P value = 0.000252 (Chi-square test), Q value = 0.05

Table S470.  Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 124 36 23 95 72 20 103 40
DEL PEAK 36(21Q11.2) MUTATED 38 11 4 15 22 3 10 3
DEL PEAK 36(21Q11.2) WILD-TYPE 86 25 19 80 50 17 93 37

Figure S470.  Get High-res Image Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #1: 'MRNA_CNMF'

'Del Peak 36(21q11.2) mutation analysis' versus 'CN_CNMF'

P value = 4.31e-11 (Chi-square test), Q value = 1.8e-08

Table S471.  Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 347 222 72 223 49
DEL PEAK 36(21Q11.2) MUTATED 28 66 13 63 12
DEL PEAK 36(21Q11.2) WILD-TYPE 319 156 59 160 37

Figure S471.  Get High-res Image Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #3: 'CN_CNMF'

'Del Peak 36(21q11.2) mutation analysis' versus 'METHLYATION_CNMF'

P value = 2.01e-06 (Chi-square test), Q value = 0.00056

Table S472.  Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 36(21Q11.2) MUTATED 17 16 18 48 7 9
DEL PEAK 36(21Q11.2) WILD-TYPE 84 123 75 89 33 88

Figure S472.  Get High-res Image Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 36(21q11.2) mutation analysis' versus 'MRNASEQ_CNMF'

P value = 0.000587 (Chi-square test), Q value = 0.11

Table S473.  Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
ALL 146 79 100 131 178 12 151 31
DEL PEAK 36(21Q11.2) MUTATED 23 17 20 38 50 3 16 3
DEL PEAK 36(21Q11.2) WILD-TYPE 123 62 80 93 128 9 135 28

Figure S473.  Get High-res Image Gene #63: 'Del Peak 36(21q11.2) mutation analysis' versus Clinical Feature #7: 'MRNASEQ_CNMF'

'Del Peak 37(22q13.32) mutation analysis' versus 'METHLYATION_CNMF'

P value = 0.000674 (Chi-square test), Q value = 0.12

Table S474.  Gene #64: 'Del Peak 37(22q13.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 101 139 93 137 40 97
DEL PEAK 37(22Q13.32) MUTATED 49 52 42 79 10 36
DEL PEAK 37(22Q13.32) WILD-TYPE 52 87 51 58 30 61

Figure S474.  Get High-res Image Gene #64: 'Del Peak 37(22q13.32) mutation analysis' versus Clinical Feature #4: 'METHLYATION_CNMF'

'Del Peak 37(22q13.32) mutation analysis' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.000923 (Fisher's exact test), Q value = 0.16

Table S475.  Gene #64: 'Del Peak 37(22q13.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 336 205 287
DEL PEAK 37(22Q13.32) MUTATED 173 72 127
DEL PEAK 37(22Q13.32) WILD-TYPE 163 133 160

Figure S475.  Get High-res Image Gene #64: 'Del Peak 37(22q13.32) mutation analysis' versus Clinical Feature #8: 'MRNASEQ_CHIERARCHICAL'

Methods & Data
Input

  • Copy number data file = All Lesions File (all_lesions.conf_##.txt, where ## is the confidence level). The all lesions file is from GISTIC pipeline and summarizes the results from the GISTIC run. It contains data about the significant regions of amplification and deletion as well as which samples are amplified or deleted in each of these regions. The identified regions are listed down the first column, and the samples are listed across the first row, starting in column 10.

  • Molecular subtype file = BRCA-TP.transferedmergedcluster.txt

  • Number of patients = 913

  • Number of copy number variation regions = 64

  • Number of molecular subtypes = 10

  • Exclude regions that fewer than K tumors have alterations, K = 3

Chi-square test

For multi-class clinical features (nominal or ordinal), Chi-square tests (Greenwood and Nikulin 1996) were used to estimate the P values using the 'chisq.test' function in R

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

This is an experimental feature. The full results of the analysis summarized in this report can be downloaded from the TCGA Data Coordination Center.

References
[1] Greenwood and Nikulin, A guide to chi-squared testing, Wiley, New York. ISBN 047155779X (1996)
[2] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)
[3] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)
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