Correlation between copy number variation genes (focal events) and selected clinical features
Colorectal Adenocarcinoma (Primary solid tumor)
28 January 2016  |  analyses__2016_01_28
Maintainer Information
Citation Information
doi:10.7908/C1J102JC
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2016): Correlation between copy number variation genes (focal events) and selected clinical features. Broad Institute of MIT and Harvard. doi:10.7908/C1J102JC
Overview
Introduction

This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.

Summary

Testing the association between copy number variation 72 focal events and 13 clinical features across 614 patients, 353 significant findings detected with Q value < 0.25.

  • amp_1q31.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_2q33.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_5p12 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_6p21.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_7p21.3 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_8p11.23 cnv correlated to 'RESIDUAL_TUMOR'.

  • amp_8p11.21 cnv correlated to 'RESIDUAL_TUMOR'.

  • amp_8q24.21 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • amp_11p15.5 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • amp_13q12.13 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_13q12.2 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_13q22.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_15q26.1 cnv correlated to 'PATHOLOGY_N_STAGE' and 'NUMBER_OF_LYMPH_NODES'.

  • amp_16p11.2 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_17q12 cnv correlated to 'PATHOLOGY_M_STAGE' and 'RESIDUAL_TUMOR'.

  • amp_17q24.1 cnv correlated to 'Time to Death',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • amp_19q12 cnv correlated to 'PATHOLOGY_M_STAGE' and 'HISTOLOGICAL_TYPE'.

  • amp_20p12.1 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • amp_20p11.21 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • amp_20q11.21 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_20q12 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • amp_20q13.12 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_1p36.11 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_1p33 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_1p13.2 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_2p12 cnv correlated to 'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_3p26.3 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_3p14.2 cnv correlated to 'PATHOLOGY_M_STAGE'.

  • del_3q26.31 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_4p16.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_4q22.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_4q35.1 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_5q12.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_5q21.2 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_5q22.2 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_5q23.3 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_6p25.3 cnv correlated to 'YEARS_TO_BIRTH',  'GENDER', and 'RADIATION_THERAPY'.

  • del_6q26 cnv correlated to 'Time to Death',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_7q31.1 cnv correlated to 'RADIATION_THERAPY' and 'ETHNICITY'.

  • del_8p23.2 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_8p22 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_8q11.1 cnv correlated to 'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_9p21.3 cnv correlated to 'GENDER',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_10p15.3 cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_10q21.1 cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGIC_STAGE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE',  'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.

  • del_10q23.31 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_10q25.2 cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_11q22.3 cnv correlated to 'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_12p13.1 cnv correlated to 'Time to Death',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • del_12q21.33 cnv correlated to 'PATHOLOGIC_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_14q11.2 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • del_14q31.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_15q11.2 cnv correlated to 'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_15q15.2 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_15q21.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_15q22.33 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_16p13.3 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE', and 'PATHOLOGY_T_STAGE'.

  • del_16q23.1 cnv correlated to 'Time to Death'.

  • del_17p12 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_17q24.3 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_18p11.31 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_18q12.2 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_18q21.2 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE',  'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.

  • del_18q22.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_19p13.3 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_20p12.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

  • del_21q11.2 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.

  • del_21q21.1 cnv correlated to 'TUMOR_TISSUE_SITE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.

  • del_22q13.32 cnv correlated to 'Time to Death',  'PATHOLOGIC_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 72 focal events and 13 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 353 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		TUMOR
TISSUE
SITE 		PATHOLOGIC
STAGE 		PATHOLOGY
T
STAGE 		PATHOLOGY
N
STAGE 		PATHOLOGY
M
STAGE 		GENDER RADIATION
THERAPY 		HISTOLOGICAL
TYPE 		RESIDUAL
TUMOR 		NUMBER
OF
LYMPH
NODES 		ETHNICITY
nCNV (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test
del 8p23 2 288 (47%) 326 0.0779
(0.221) 		0.169
(0.362) 		7.27e-05
(0.00117) 		1e-05
(0.000284) 		0.0828
(0.229) 		1e-05
(0.000284) 		6.27e-05
(0.00105) 		0.0291
(0.115) 		0.85
(0.955) 		2e-05
(0.00048) 		0.00577
(0.0362) 		3.47e-06
(0.000284) 		0.19
(0.392)
del 18q21 2 431 (70%) 183 0.487
(0.699) 		0.0457
(0.153) 		3.7e-09
(1.73e-06) 		2e-05
(0.00048) 		0.329
(0.557) 		1e-05
(0.000284) 		9.02e-06
(0.000284) 		0.0634
(0.196) 		0.0604
(0.19) 		1e-05
(0.000284) 		0.0794
(0.223) 		5.88e-06
(0.000284) 		1
(1.00)
del 8p22 302 (49%) 312 0.0175
(0.0806) 		0.155
(0.342) 		0.000476
(0.00544) 		1e-05
(0.000284) 		0.03
(0.117) 		1e-05
(0.000284) 		2.29e-05
(0.000535) 		0.106
(0.27) 		0.567
(0.767) 		5e-05
(0.000955) 		0.00966
(0.0539) 		6.31e-08
(1.97e-05) 		0.371
(0.599)
del 4p16 1 201 (33%) 413 0.41
(0.632) 		0.903
(0.992) 		0.0789
(0.222) 		0.00295
(0.0217) 		0.932
(1.00) 		0.00109
(0.0102) 		0.00113
(0.0103) 		0.0709
(0.21) 		0.0403
(0.14) 		0.024
(0.0995) 		0.228
(0.434) 		0.00039
(0.00487) 		0.176
(0.374)
del 18p11 31 369 (60%) 245 0.359
(0.586) 		0.0188
(0.0841) 		2.63e-06
(0.000284) 		8e-05
(0.00125) 		0.905
(0.993) 		0.00755
(0.0447) 		7.54e-06
(0.000284) 		0.564
(0.765) 		1
(1.00) 		1e-05
(0.000284) 		0.0499
(0.162) 		0.0178
(0.0809) 		0.652
(0.825)
del 18q12 2 414 (67%) 200 0.454
(0.675) 		0.0311
(0.12) 		1.49e-09
(1.39e-06) 		0.00041
(0.00492) 		0.326
(0.557) 		7e-05
(0.00115) 		0.000406
(0.00492) 		0.196
(0.397) 		0.1
(0.26) 		1e-05
(0.000284) 		0.0779
(0.221) 		0.000511
(0.00563) 		1
(1.00)
amp 7p21 3 361 (59%) 253 0.84
(0.949) 		0.0879
(0.238) 		0.0199
(0.0879) 		2e-05
(0.00048) 		0.907
(0.994) 		1e-05
(0.000284) 		0.0094
(0.0533) 		0.805
(0.934) 		0.251
(0.461) 		0.00035
(0.00443) 		0.288
(0.51) 		8.94e-05
(0.00137) 		1
(1.00)
amp 13q12 13 401 (65%) 213 0.95
(1.00) 		0.466
(0.686) 		0.000738
(0.00759) 		0.00013
(0.00196) 		0.821
(0.944) 		2e-05
(0.00048) 		0.00213
(0.0178) 		0.671
(0.84) 		0.22
(0.429) 		1e-05
(0.000284) 		0.0399
(0.139) 		5.56e-05
(0.00102) 		1
(1.00)
amp 13q12 2 395 (64%) 219 0.955
(1.00) 		0.43
(0.65) 		0.000556
(0.00596) 		0.00014
(0.00208) 		0.887
(0.982) 		4e-05
(0.000797) 		0.00519
(0.034) 		0.448
(0.669) 		0.157
(0.344) 		1e-05
(0.000284) 		0.0769
(0.221) 		5.25e-05
(0.000983) 		0.668
(0.839)
amp 13q22 1 397 (65%) 217 0.762
(0.906) 		0.8
(0.93) 		0.0167
(0.0777) 		0.00041
(0.00492) 		0.724
(0.878) 		3e-05
(0.000653) 		0.0109
(0.0575) 		0.205
(0.412) 		0.0459
(0.153) 		1e-05
(0.000284) 		0.222
(0.431) 		0.000246
(0.00332) 		1
(1.00)
amp 20q11 21 467 (76%) 147 0.886
(0.982) 		0.685
(0.853) 		3.27e-06
(0.000284) 		0.0026
(0.0205) 		0.19
(0.392) 		0.00075
(0.00763) 		0.00598
(0.037) 		0.218
(0.428) 		0.504
(0.712) 		1e-05
(0.000284) 		0.0707
(0.21) 		0.00435
(0.03) 		1
(1.00)
amp 20q12 469 (76%) 145 0.727
(0.879) 		0.585
(0.78) 		1.65e-06
(0.000284) 		0.00047
(0.00543) 		0.263
(0.475) 		0.00029
(0.00382) 		0.000893
(0.00871) 		0.216
(0.427) 		0.504
(0.712) 		1e-05
(0.000284) 		0.0693
(0.209) 		0.00455
(0.0311) 		1
(1.00)
amp 20q13 12 471 (77%) 143 0.966
(1.00) 		0.698
(0.864) 		2.62e-06
(0.000284) 		0.00024
(0.00332) 		0.38
(0.603) 		0.00017
(0.00245) 		0.000464
(0.00543) 		0.214
(0.425) 		0.505
(0.712) 		1e-05
(0.000284) 		0.0698
(0.209) 		0.0014
(0.0123) 		1
(1.00)
del 1p36 11 243 (40%) 371 0.134
(0.312) 		0.056
(0.177) 		0.0913
(0.244) 		0.00295
(0.0217) 		0.29
(0.51) 		0.00461
(0.0313) 		4.38e-05
(0.000855) 		0.137
(0.314) 		0.566
(0.767) 		0.00099
(0.00936) 		0.109
(0.273) 		0.000606
(0.00638) 		1
(1.00)
del 3p26 3 92 (15%) 522 0.0436
(0.148) 		0.621
(0.808) 		0.366
(0.594) 		0.0425
(0.146) 		0.0972
(0.256) 		0.0134
(0.0669) 		0.000244
(0.00332) 		0.497
(0.71) 		0.599
(0.791) 		0.0381
(0.134) 		0.0738
(0.217) 		0.00678
(0.0407) 		0.171
(0.366)
del 10q23 31 160 (26%) 454 0.175
(0.372) 		0.00336
(0.0242) 		0.0759
(0.22) 		0.0909
(0.244) 		0.575
(0.772) 		0.07
(0.209) 		0.188
(0.389) 		0.927
(1.00) 		0.0522
(0.167) 		0.0171
(0.0793) 		0.737
(0.886) 		0.0132
(0.0659) 		0.136
(0.313)
del 15q22 33 237 (39%) 377 0.56
(0.762) 		0.423
(0.644) 		0.0183
(0.0829) 		0.00978
(0.0542) 		0.0845
(0.232) 		0.00288
(0.0217) 		0.00393
(0.0274) 		0.282
(0.501) 		0.327
(0.557) 		0.00907
(0.0518) 		0.517
(0.725) 		0.00096
(0.00926) 		1
(1.00)
del 18q22 1 426 (69%) 188 0.634
(0.817) 		0.118
(0.289) 		1.72e-07
(4.02e-05) 		3e-05
(0.000653) 		0.469
(0.686) 		4e-05
(0.000797) 		1.94e-05
(0.00048) 		0.0663
(0.203) 		0.147
(0.328) 		1e-05
(0.000284) 		0.134
(0.312) 		3.62e-05
(0.000769) 		1
(1.00)
amp 5p12 116 (19%) 498 0.107
(0.271) 		0.133
(0.31) 		0.0357
(0.131) 		0.1
(0.26) 		0.685
(0.853) 		0.0462
(0.153) 		0.0352
(0.13) 		0.607
(0.798) 		0.14
(0.319) 		0.0137
(0.0677) 		0.0634
(0.196) 		0.00895
(0.0514) 		1
(1.00)
amp 6p21 1 154 (25%) 460 0.922
(1.00) 		0.774
(0.916) 		0.0255
(0.104) 		0.00238
(0.0194) 		0.328
(0.557) 		0.00015
(0.00219) 		0.0146
(0.0714) 		0.192
(0.393) 		0.186
(0.389) 		0.00572
(0.0362) 		0.211
(0.42) 		0.000248
(0.00332) 		0.331
(0.561)
amp 20p12 1 278 (45%) 336 0.922
(1.00) 		0.555
(0.759) 		0.167
(0.359) 		0.0126
(0.064) 		0.877
(0.976) 		0.0768
(0.221) 		0.000618
(0.00643) 		0.0283
(0.113) 		0.0863
(0.236) 		0.0128
(0.065) 		0.124
(0.3) 		0.127
(0.302) 		1
(1.00)
del 1p33 176 (29%) 438 0.0314
(0.12) 		0.645
(0.824) 		0.361
(0.587) 		0.0419
(0.144) 		0.284
(0.504) 		0.0379
(0.134) 		0.0143
(0.0701) 		0.532
(0.739) 		0.835
(0.948) 		0.00995
(0.0542) 		0.24
(0.453) 		0.00987
(0.0542) 		0.158
(0.344)
del 1p13 2 175 (29%) 439 0.0199
(0.0879) 		0.8
(0.93) 		0.224
(0.432) 		0.015
(0.0728) 		0.157
(0.344) 		0.0132
(0.0659) 		0.00996
(0.0542) 		0.474
(0.69) 		0.834
(0.948) 		0.051
(0.164) 		0.41
(0.632) 		0.000779
(0.00784) 		0.636
(0.817)
del 5q12 1 158 (26%) 456 0.247
(0.459) 		0.204
(0.411) 		0.0277
(0.111) 		0.0107
(0.0573) 		0.979
(1.00) 		0.0326
(0.123) 		0.0105
(0.0567) 		0.579
(0.776) 		1
(1.00) 		0.00779
(0.0456) 		0.393
(0.614) 		0.0158
(0.0752) 		0.136
(0.313)
del 5q22 2 188 (31%) 426 0.103
(0.261) 		0.508
(0.715) 		0.0747
(0.219) 		0.0154
(0.074) 		0.762
(0.906) 		0.0348
(0.129) 		0.016
(0.0752) 		0.38
(0.603) 		0.837
(0.948) 		0.0458
(0.153) 		0.216
(0.427) 		0.0201
(0.0885) 		0.18
(0.38)
del 6q26 91 (15%) 523 0.0376
(0.134) 		0.717
(0.872) 		0.299
(0.521) 		0.251
(0.46) 		0.191
(0.393) 		0.00152
(0.0129) 		0.0936
(0.249) 		0.211
(0.42) 		0.0252
(0.104) 		0.0315
(0.12) 		0.195
(0.397) 		0.00208
(0.0175) 		1
(1.00)
del 10q21 1 138 (22%) 476 0.818
(0.944) 		0.0359
(0.131) 		0.443
(0.663) 		0.0876
(0.238) 		0.918
(1.00) 		0.136
(0.313) 		0.129
(0.302) 		0.771
(0.915) 		0.00099
(0.00936) 		0.0264
(0.107) 		0.393
(0.614) 		0.0433
(0.147) 		0.0113
(0.0593)
del 15q15 2 250 (41%) 364 0.593
(0.789) 		0.289
(0.51) 		0.0398
(0.139) 		0.0494
(0.161) 		0.778
(0.917) 		0.00586
(0.0366) 		0.00426
(0.0295) 		0.218
(0.428) 		0.25
(0.46) 		0.0124
(0.0639) 		0.556
(0.759) 		0.00325
(0.0236) 		1
(1.00)
del 17p12 368 (60%) 246 0.496
(0.708) 		0.205
(0.412) 		0.00272
(0.0209) 		0.00049
(0.00546) 		0.391
(0.614) 		6e-05
(0.00102) 		0.00274
(0.0209) 		0.41
(0.632) 		0.848
(0.955) 		1e-05
(0.000284) 		0.213
(0.424) 		1.57e-05
(0.000431) 		0.652
(0.825)
del 19p13 3 97 (16%) 517 0.341
(0.572) 		0.197
(0.399) 		0.0773
(0.221) 		0.00294
(0.0217) 		0.418
(0.639) 		4e-05
(0.000797) 		0.00705
(0.042) 		0.32
(0.55) 		0.6
(0.791) 		0.0809
(0.226) 		0.102
(0.261) 		7.28e-06
(0.000284) 		0.547
(0.756)
del 22q13 32 226 (37%) 388 0.0831
(0.229) 		0.827
(0.944) 		0.295
(0.517) 		0.00266
(0.0207) 		0.436
(0.657) 		0.00019
(0.00269) 		0.00517
(0.034) 		0.402
(0.624) 		0.555
(0.759) 		0.00543
(0.0351) 		0.383
(0.606) 		0.000302
(0.00393) 		0.35
(0.579)
amp 2q33 1 140 (23%) 474 0.14
(0.318) 		0.925
(1.00) 		0.022
(0.0938) 		0.0819
(0.228) 		0.827
(0.944) 		0.00116
(0.0105) 		0.26
(0.472) 		0.848
(0.955) 		0.261
(0.472) 		0.00348
(0.0249) 		0.222
(0.43) 		0.005
(0.0334) 		0.113
(0.281)
amp 16p11 2 172 (28%) 442 0.579
(0.776) 		0.484
(0.697) 		0.76
(0.906) 		0.0011
(0.0102) 		0.749
(0.898) 		3e-05
(0.000653) 		0.0494
(0.161) 		1
(1.00) 		0.835
(0.948) 		0.00049
(0.00546) 		0.549
(0.757) 		5.85e-05
(0.00102) 		0.622
(0.809)
amp 20p11 21 362 (59%) 252 0.935
(1.00) 		0.874
(0.975) 		0.00894
(0.0514) 		0.0185
(0.0833) 		0.614
(0.801) 		0.381
(0.603) 		0.00135
(0.012) 		0.0485
(0.159) 		0.335
(0.565) 		1e-05
(0.000284) 		0.453
(0.674) 		0.714
(0.869) 		0.652
(0.825)
del 3q26 31 64 (10%) 550 0.737
(0.886) 		0.53
(0.738) 		1
(1.00) 		0.0483
(0.159) 		0.102
(0.261) 		0.0734
(0.216) 		0.0209
(0.0901) 		0.43
(0.65) 		0.758
(0.906) 		0.00951
(0.0536) 		0.608
(0.798) 		0.0939
(0.249) 		1
(1.00)
del 4q22 1 223 (36%) 391 0.344
(0.574) 		0.187
(0.389) 		0.0279
(0.111) 		0.0212
(0.0911) 		0.156
(0.343) 		0.00053
(0.00577) 		0.115
(0.283) 		0.11
(0.275) 		0.235
(0.443) 		0.00231
(0.019) 		0.638
(0.82) 		0.000315
(0.00404) 		0.368
(0.596)
del 4q35 1 231 (38%) 383 0.892
(0.982) 		0.147
(0.328) 		0.107
(0.271) 		0.051
(0.164) 		0.527
(0.735) 		0.00082
(0.00817) 		0.0712
(0.21) 		0.934
(1.00) 		0.167
(0.359) 		0.0483
(0.159) 		0.892
(0.982) 		0.000429
(0.00509) 		0.379
(0.603)
del 5q21 2 186 (30%) 428 0.122
(0.296) 		0.21
(0.42) 		0.274
(0.491) 		0.00245
(0.0198) 		0.825
(0.944) 		0.00147
(0.0127) 		0.0108
(0.0573) 		0.793
(0.928) 		0.838
(0.948) 		0.0623
(0.194) 		0.461
(0.683) 		0.00142
(0.0124) 		0.18
(0.38)
del 5q23 3 160 (26%) 454 0.341
(0.572) 		0.377
(0.603) 		0.0368
(0.133) 		0.00527
(0.0343) 		0.866
(0.969) 		0.00603
(0.0371) 		0.143
(0.324) 		0.713
(0.869) 		0.663
(0.834) 		0.0176
(0.0806) 		0.358
(0.586) 		0.00514
(0.034) 		0.126
(0.302)
del 10p15 3 113 (18%) 501 0.244
(0.456) 		0.0229
(0.0972) 		0.344
(0.574) 		0.0258
(0.105) 		0.585
(0.78) 		0.0299
(0.117) 		0.0363
(0.132) 		0.835
(0.948) 		0.146
(0.328) 		0.373
(0.599) 		0.821
(0.944) 		0.00491
(0.0331) 		1
(1.00)
del 14q31 1 218 (36%) 396 0.776
(0.917) 		0.163
(0.354) 		0.0445
(0.15) 		0.458
(0.679) 		0.248
(0.459) 		0.0161
(0.0753) 		0.0296
(0.117) 		0.206
(0.413) 		0.556
(0.759) 		1e-05
(0.000284) 		0.893
(0.982) 		0.0368
(0.133) 		1
(1.00)
del 15q11 2 248 (40%) 366 0.629
(0.814) 		0.501
(0.712) 		0.4
(0.622) 		0.0316
(0.12) 		0.854
(0.958) 		0.0155
(0.0741) 		0.0239
(0.0995) 		0.285
(0.505) 		0.436
(0.657) 		0.0916
(0.244) 		0.652
(0.825) 		0.00257
(0.0205) 		1
(1.00)
del 15q21 1 247 (40%) 367 0.438
(0.658) 		0.618
(0.805) 		0.0313
(0.12) 		0.114
(0.282) 		0.815
(0.944) 		0.024
(0.0995) 		0.00626
(0.0378) 		0.138
(0.316) 		0.243
(0.456) 		0.0123
(0.0637) 		0.379
(0.603) 		0.0111
(0.0582) 		1
(1.00)
del 17q24 3 95 (15%) 519 0.0897
(0.242) 		0.255
(0.466) 		1
(1.00) 		0.00228
(0.0189) 		0.127
(0.302) 		0.00131
(0.0118) 		0.0142
(0.0701) 		0.22
(0.429) 		0.79
(0.927) 		1
(1.00) 		0.388
(0.612) 		7.75e-05
(0.00123) 		1
(1.00)
del 21q11 2 213 (35%) 401 0.417
(0.638) 		0.646
(0.824) 		0.00381
(0.0268) 		0.273
(0.489) 		0.941
(1.00) 		0.0898
(0.242) 		0.391
(0.614) 		0.611
(0.799) 		0.548
(0.757) 		6e-05
(0.00102) 		0.519
(0.727) 		0.033
(0.124) 		0.0544
(0.173)
del 21q21 1 209 (34%) 405 0.969
(1.00) 		0.35
(0.579) 		0.00272
(0.0209) 		0.256
(0.466) 		0.954
(1.00) 		0.0203
(0.0889) 		0.623
(0.809) 		0.932
(1.00) 		0.225
(0.433) 		6e-05
(0.00102) 		0.415
(0.637) 		0.00564
(0.036) 		0.0528
(0.169)
amp 1q31 1 145 (24%) 469 0.328
(0.557) 		0.348
(0.579) 		0.0654
(0.201) 		0.289
(0.51) 		0.449
(0.67) 		0.0661
(0.203) 		0.0372
(0.134) 		0.183
(0.385) 		0.186
(0.389) 		0.118
(0.289) 		0.772
(0.915) 		0.0178
(0.0809) 		1
(1.00)
amp 8q24 21 366 (60%) 248 0.161
(0.35) 		0.154
(0.342) 		0.0621
(0.194) 		0.0102
(0.055) 		0.228
(0.434) 		0.122
(0.296) 		0.00622
(0.0378) 		0.188
(0.389) 		1
(1.00) 		0.00565
(0.036) 		0.128
(0.302) 		0.144
(0.324) 		1
(1.00)
del 9p21 3 87 (14%) 527 0.572
(0.77) 		0.102
(0.26) 		0.599
(0.791) 		0.641
(0.822) 		0.303
(0.528) 		0.393
(0.614) 		0.144
(0.324) 		0.0816
(0.227) 		1
(1.00) 		0.0318
(0.12) 		0.0327
(0.123) 		0.0702
(0.209) 		0.146
(0.328)
del 10q25 2 156 (25%) 458 0.778
(0.917) 		0.0382
(0.134) 		0.247
(0.459) 		0.257
(0.467) 		0.324
(0.554) 		0.0363
(0.132) 		0.235
(0.443) 		0.926
(1.00) 		0.13
(0.305) 		0.0236
(0.0992) 		0.67
(0.84) 		0.0189
(0.0843) 		0.61
(0.799)
del 11q22 3 110 (18%) 504 0.313
(0.541) 		0.419
(0.639) 		0.0692
(0.209) 		0.592
(0.788) 		0.773
(0.915) 		0.165
(0.357) 		0.442
(0.663) 		0.674
(0.842) 		0.076
(0.22) 		0.0393
(0.138) 		0.518
(0.726) 		0.0604
(0.19) 		0.583
(0.78)
del 12p13 1 92 (15%) 522 0.0703
(0.209) 		0.22
(0.429) 		0.194
(0.396) 		0.109
(0.274) 		0.799
(0.93) 		0.0336
(0.125) 		0.0439
(0.148) 		0.735
(0.886) 		0.795
(0.929) 		0.0125
(0.064) 		0.984
(1.00) 		0.124
(0.299) 		1
(1.00)
amp 11p15 5 136 (22%) 478 0.954
(1.00) 		0.0206
(0.0895) 		0.0761
(0.22) 		0.918
(1.00) 		0.336
(0.565) 		0.377
(0.603) 		0.265
(0.478) 		0.698
(0.864) 		0.823
(0.944) 		0.00089
(0.00871) 		0.87
(0.972) 		0.355
(0.583) 		1
(1.00)
amp 17q24 1 144 (23%) 470 0.0122
(0.0636) 		0.272
(0.489) 		1
(1.00) 		0.707
(0.868) 		0.709
(0.869) 		0.932
(1.00) 		0.0698
(0.209) 		0.703
(0.865) 		0.824
(0.944) 		0.0692
(0.209) 		0.153
(0.339) 		0.646
(0.824) 		0.101
(0.26)
del 2p12 21 (3%) 593 0.711
(0.869) 		0.128
(0.302) 		0.000561
(0.00596) 		0.267
(0.481) 		1
(1.00) 		0.468
(0.686) 		0.756
(0.905) 		0.661
(0.833) 		0.0754
(0.22) 		0.00608
(0.0372) 		0.89
(0.982) 		0.39
(0.613) 		1
(1.00)
del 6p25 3 79 (13%) 535 0.227
(0.433) 		0.043
(0.147) 		0.89
(0.982) 		0.478
(0.692) 		0.502
(0.712) 		0.492
(0.704) 		1
(1.00) 		0.0535
(0.17) 		0.0856
(0.234) 		0.427
(0.649) 		0.466
(0.686) 		0.413
(0.635) 		1
(1.00)
del 8q11 1 47 (8%) 567 0.492
(0.704) 		0.314
(0.542) 		0.223
(0.432) 		0.0969
(0.256) 		0.737
(0.886) 		0.0381
(0.134) 		0.081
(0.226) 		0.227
(0.433) 		0.714
(0.869) 		0.526
(0.735) 		0.319
(0.55) 		0.0253
(0.104) 		1
(1.00)
del 12q21 33 90 (15%) 524 0.108
(0.271) 		0.8
(0.93) 		0.436
(0.657) 		0.0876
(0.238) 		0.728
(0.879) 		0.121
(0.296) 		0.319
(0.549) 		0.648
(0.825) 		0.793
(0.928) 		0.0208
(0.09) 		0.481
(0.694) 		0.0309
(0.12) 		0.562
(0.763)
del 14q11 2 210 (34%) 404 0.995
(1.00) 		0.25
(0.46) 		0.0153
(0.0739) 		0.602
(0.794) 		0.38
(0.603) 		0.0407
(0.141) 		0.111
(0.276) 		0.932
(1.00) 		0.322
(0.552) 		1e-05
(0.000284) 		0.884
(0.982) 		0.161
(0.35) 		1
(1.00)
del 16p13 3 68 (11%) 546 0.00968
(0.0539) 		0.919
(1.00) 		0.148
(0.331) 		0.0332
(0.124) 		0.0249
(0.103) 		0.227
(0.433) 		0.196
(0.397) 		0.699
(0.864) 		0.761
(0.906) 		0.22
(0.429) 		0.481
(0.694) 		0.122
(0.296) 		0.467
(0.686)
del 20p12 1 135 (22%) 479 0.833
(0.948) 		0.353
(0.582) 		0.00774
(0.0456) 		0.139
(0.318) 		0.748
(0.897) 		0.305
(0.531) 		1
(1.00) 		0.558
(0.761) 		0.48
(0.694) 		0.0015
(0.0129) 		0.409
(0.632) 		0.0823
(0.228) 		1
(1.00)
amp 15q26 1 42 (7%) 572 0.249
(0.46) 		0.785
(0.924) 		0.475
(0.691) 		0.349
(0.579) 		0.39
(0.613) 		0.00259
(0.0205) 		0.653
(0.825) 		0.201
(0.407) 		0.693
(0.859) 		0.535
(0.743) 		0.572
(0.77) 		0.00361
(0.0256) 		1
(1.00)
amp 17q12 160 (26%) 454 0.101
(0.26) 		0.195
(0.397) 		0.467
(0.686) 		0.217
(0.428) 		0.184
(0.386) 		0.166
(0.357) 		0.00297
(0.0217) 		0.0974
(0.256) 		1
(1.00) 		0.25
(0.46) 		0.0772
(0.221) 		0.248
(0.459) 		0.113
(0.281)
amp 19q12 139 (23%) 475 0.375
(0.601) 		0.568
(0.767) 		0.127
(0.302) 		0.372
(0.599) 		0.849
(0.955) 		0.101
(0.26) 		0.0236
(0.0992) 		0.246
(0.459) 		0.818
(0.944) 		0.023
(0.0972) 		0.243
(0.456) 		0.295
(0.517) 		0.599
(0.791)
del 7q31 1 17 (3%) 597 0.702
(0.865) 		0.688
(0.854) 		1
(1.00) 		0.787
(0.925) 		0.429
(0.65) 		0.892
(0.982) 		1
(1.00) 		0.633
(0.817) 		0.0472
(0.156) 		0.505
(0.712) 		0.663
(0.834) 		0.569
(0.768) 		0.00822
(0.0478)
amp 8p11 23 210 (34%) 404 0.938
(1.00) 		0.805
(0.934) 		0.63
(0.815) 		0.466
(0.686) 		0.598
(0.791) 		0.515
(0.723) 		0.71
(0.869) 		0.551
(0.758) 		0.688
(0.854) 		0.187
(0.389) 		0.078
(0.221) 		0.703
(0.865) 		0.657
(0.829)
amp 8p11 21 254 (41%) 360 0.825
(0.944) 		0.487
(0.699) 		0.643
(0.823) 		0.231
(0.438) 		0.476
(0.691) 		0.358
(0.586) 		0.0985
(0.258) 		0.164
(0.355) 		0.847
(0.955) 		0.128
(0.302) 		0.0314
(0.12) 		0.451
(0.672) 		0.403
(0.625)
del 3p14 2 118 (19%) 496 0.359
(0.586) 		0.35
(0.579) 		0.727
(0.879) 		0.396
(0.617) 		0.136
(0.313) 		0.252
(0.461) 		0.016
(0.0752) 		0.358
(0.586) 		1
(1.00) 		0.603
(0.794) 		0.37
(0.598) 		0.1
(0.26) 		1
(1.00)
del 16q23 1 83 (14%) 531 0.0606
(0.19) 		0.502
(0.712) 		0.79
(0.927) 		0.683
(0.852) 		0.226
(0.433) 		0.501
(0.712) 		0.306
(0.532) 		0.555
(0.759) 		1
(1.00) 		0.855
(0.958) 		0.825
(0.944) 		0.916
(1.00) 		0.126
(0.302)
amp 10q22 3 40 (7%) 574 0.707
(0.868) 		0.472
(0.689) 		0.855
(0.958) 		0.463
(0.684) 		0.28
(0.499) 		0.0992
(0.259) 		0.473
(0.689) 		0.624
(0.809) 		0.653
(0.825) 		0.946
(1.00) 		0.877
(0.976) 		0.12
(0.293) 		0.295
(0.517)
amp 12p13 33 153 (25%) 461 0.31
(0.537) 		0.128
(0.302) 		0.915
(1.00) 		0.175
(0.372) 		0.361
(0.587) 		0.156
(0.343) 		1
(1.00) 		1
(1.00) 		0.18
(0.38) 		0.611
(0.799) 		0.636
(0.817) 		0.351
(0.579) 		0.337
(0.567)
del 2q22 1 35 (6%) 579 0.536
(0.744) 		0.825
(0.944) 		0.554
(0.759) 		0.277
(0.494) 		0.421
(0.641) 		0.541
(0.75) 		0.333
(0.563) 		0.728
(0.879) 		1
(1.00) 		0.891
(0.982) 		0.935
(1.00) 		0.233
(0.441) 		1
(1.00)
'amp_1q31.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0654 (Fisher's exact test), Q value = 0.2

Table S1.  Gene #1: 'amp_1q31.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 1(1Q31.1) MUTATED 96 47
AMP PEAK 1(1Q31.1) WILD-TYPE 352 115

Figure S1.  Get High-res Image Gene #1: 'amp_1q31.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_1q31.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0661 (Fisher's exact test), Q value = 0.2

Table S2.  Gene #1: 'amp_1q31.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 1(1Q31.1) MUTATED 69 39 34
AMP PEAK 1(1Q31.1) WILD-TYPE 277 111 81

Figure S2.  Get High-res Image Gene #1: 'amp_1q31.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_1q31.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0372 (Fisher's exact test), Q value = 0.13

Table S3.  Gene #1: 'amp_1q31.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 1(1Q31.1) MUTATED 96 28
AMP PEAK 1(1Q31.1) WILD-TYPE 357 60

Figure S3.  Get High-res Image Gene #1: 'amp_1q31.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_1q31.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0178 (Wilcoxon-test), Q value = 0.081

Table S4.  Gene #1: 'amp_1q31.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 1(1Q31.1) MUTATED 138 3.1 (5.5)
AMP PEAK 1(1Q31.1) WILD-TYPE 442 2.0 (4.4)

Figure S4.  Get High-res Image Gene #1: 'amp_1q31.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_2q33.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.022 (Fisher's exact test), Q value = 0.094

Table S5.  Gene #2: 'amp_2q33.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 2(2Q33.1) MUTATED 92 48
AMP PEAK 2(2Q33.1) WILD-TYPE 356 114

Figure S5.  Get High-res Image Gene #2: 'amp_2q33.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_2q33.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0819 (Fisher's exact test), Q value = 0.23

Table S6.  Gene #2: 'amp_2q33.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 2(2Q33.1) MUTATED 21 0 8 29 1 1 5 2 23 22 15 6 1
AMP PEAK 2(2Q33.1) WILD-TYPE 83 1 29 143 11 1 19 13 61 33 48 18 1

Figure S6.  Get High-res Image Gene #2: 'amp_2q33.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_2q33.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00116 (Fisher's exact test), Q value = 0.011

Table S7.  Gene #2: 'amp_2q33.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 2(2Q33.1) MUTATED 64 34 41
AMP PEAK 2(2Q33.1) WILD-TYPE 282 116 74

Figure S7.  Get High-res Image Gene #2: 'amp_2q33.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_2q33.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00348 (Fisher's exact test), Q value = 0.025

Table S8.  Gene #2: 'amp_2q33.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 2(2Q33.1) MUTATED 81 11 48 0
AMP PEAK 2(2Q33.1) WILD-TYPE 301 51 98 13

Figure S8.  Get High-res Image Gene #2: 'amp_2q33.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_2q33.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.005 (Wilcoxon-test), Q value = 0.033

Table S9.  Gene #2: 'amp_2q33.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 2(2Q33.1) MUTATED 134 3.1 (5.3)
AMP PEAK 2(2Q33.1) WILD-TYPE 446 2.0 (4.5)

Figure S9.  Get High-res Image Gene #2: 'amp_2q33.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_5p12' versus 'TUMOR_TISSUE_SITE'

P value = 0.0357 (Fisher's exact test), Q value = 0.13

Table S10.  Gene #3: 'amp_5p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 3(5P12) MUTATED 76 40
AMP PEAK 3(5P12) WILD-TYPE 372 122

Figure S10.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_5p12' versus 'PATHOLOGY_N_STAGE'

P value = 0.0462 (Fisher's exact test), Q value = 0.15

Table S11.  Gene #3: 'amp_5p12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 3(5P12) MUTATED 54 32 29
AMP PEAK 3(5P12) WILD-TYPE 292 118 86

Figure S11.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_5p12' versus 'PATHOLOGY_M_STAGE'

P value = 0.0352 (Fisher's exact test), Q value = 0.13

Table S12.  Gene #3: 'amp_5p12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 3(5P12) MUTATED 77 24
AMP PEAK 3(5P12) WILD-TYPE 376 64

Figure S12.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_5p12' versus 'HISTOLOGICAL_TYPE'

P value = 0.0137 (Fisher's exact test), Q value = 0.068

Table S13.  Gene #3: 'amp_5p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 3(5P12) MUTATED 67 9 40 0
AMP PEAK 3(5P12) WILD-TYPE 315 53 106 13

Figure S13.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_5p12' versus 'RESIDUAL_TUMOR'

P value = 0.0634 (Fisher's exact test), Q value = 0.2

Table S14.  Gene #3: 'amp_5p12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 3(5P12) MUTATED 84 1 13 3
AMP PEAK 3(5P12) WILD-TYPE 362 5 24 26

Figure S14.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_5p12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00895 (Wilcoxon-test), Q value = 0.051

Table S15.  Gene #3: 'amp_5p12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 3(5P12) MUTATED 112 3.0 (4.7)
AMP PEAK 3(5P12) WILD-TYPE 468 2.0 (4.7)

Figure S15.  Get High-res Image Gene #3: 'amp_5p12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_6p21.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0255 (Fisher's exact test), Q value = 0.1

Table S16.  Gene #4: 'amp_6p21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 4(6P21.1) MUTATED 100 51
AMP PEAK 4(6P21.1) WILD-TYPE 348 111

Figure S16.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_6p21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00238 (Fisher's exact test), Q value = 0.019

Table S17.  Gene #4: 'amp_6p21.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 4(6P21.1) MUTATED 21 0 5 32 1 0 4 5 26 22 19 12 1
AMP PEAK 4(6P21.1) WILD-TYPE 83 1 32 140 11 2 20 10 58 33 44 12 1

Figure S17.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_6p21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00015 (Fisher's exact test), Q value = 0.0022

Table S18.  Gene #4: 'amp_6p21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 4(6P21.1) MUTATED 66 41 45
AMP PEAK 4(6P21.1) WILD-TYPE 280 109 70

Figure S18.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_6p21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0146 (Fisher's exact test), Q value = 0.071

Table S19.  Gene #4: 'amp_6p21.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 4(6P21.1) MUTATED 102 31
AMP PEAK 4(6P21.1) WILD-TYPE 351 57

Figure S19.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_6p21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00572 (Fisher's exact test), Q value = 0.036

Table S20.  Gene #4: 'amp_6p21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 4(6P21.1) MUTATED 90 9 50 1
AMP PEAK 4(6P21.1) WILD-TYPE 292 53 96 12

Figure S20.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_6p21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000248 (Wilcoxon-test), Q value = 0.0033

Table S21.  Gene #4: 'amp_6p21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 4(6P21.1) MUTATED 149 3.4 (6.0)
AMP PEAK 4(6P21.1) WILD-TYPE 431 1.8 (4.1)

Figure S21.  Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_7p21.3' versus 'YEARS_TO_BIRTH'

P value = 0.0879 (Wilcoxon-test), Q value = 0.24

Table S22.  Gene #5: 'amp_7p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
AMP PEAK 5(7P21.3) MUTATED 360 65.7 (12.2)
AMP PEAK 5(7P21.3) WILD-TYPE 252 67.1 (13.5)

Figure S22.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7p21.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0199 (Fisher's exact test), Q value = 0.088

Table S23.  Gene #5: 'amp_7p21.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 5(7P21.3) MUTATED 251 108
AMP PEAK 5(7P21.3) WILD-TYPE 197 54

Figure S23.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7p21.3' versus 'PATHOLOGIC_STAGE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00048

Table S24.  Gene #5: 'amp_7p21.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 5(7P21.3) MUTATED 57 1 20 76 3 1 14 11 63 38 43 18 1
AMP PEAK 5(7P21.3) WILD-TYPE 47 0 17 96 9 1 10 4 21 17 20 6 1

Figure S24.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_7p21.3' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S25.  Gene #5: 'amp_7p21.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 5(7P21.3) MUTATED 172 109 77
AMP PEAK 5(7P21.3) WILD-TYPE 174 41 38

Figure S25.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_7p21.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0094 (Fisher's exact test), Q value = 0.053

Table S26.  Gene #5: 'amp_7p21.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 5(7P21.3) MUTATED 251 62
AMP PEAK 5(7P21.3) WILD-TYPE 202 26

Figure S26.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_7p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00035 (Fisher's exact test), Q value = 0.0044

Table S27.  Gene #5: 'amp_7p21.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 5(7P21.3) MUTATED 225 25 102 5
AMP PEAK 5(7P21.3) WILD-TYPE 157 37 44 8

Figure S27.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_7p21.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.94e-05 (Wilcoxon-test), Q value = 0.0014

Table S28.  Gene #5: 'amp_7p21.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 5(7P21.3) MUTATED 343 2.6 (5.1)
AMP PEAK 5(7P21.3) WILD-TYPE 237 1.7 (4.0)

Figure S28.  Get High-res Image Gene #5: 'amp_7p21.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_8p11.23' versus 'RESIDUAL_TUMOR'

P value = 0.078 (Fisher's exact test), Q value = 0.22

Table S29.  Gene #6: 'amp_8p11.23' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 6(8P11.23) MUTATED 144 1 16 15
AMP PEAK 6(8P11.23) WILD-TYPE 302 5 21 14

Figure S29.  Get High-res Image Gene #6: 'amp_8p11.23' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_8p11.21' versus 'RESIDUAL_TUMOR'

P value = 0.0314 (Fisher's exact test), Q value = 0.12

Table S30.  Gene #7: 'amp_8p11.21' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 7(8P11.21) MUTATED 173 2 22 16
AMP PEAK 7(8P11.21) WILD-TYPE 273 4 15 13

Figure S30.  Get High-res Image Gene #7: 'amp_8p11.21' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_8q24.21' versus 'TUMOR_TISSUE_SITE'

P value = 0.0621 (Fisher's exact test), Q value = 0.19

Table S31.  Gene #8: 'amp_8q24.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 8(8Q24.21) MUTATED 258 107
AMP PEAK 8(8Q24.21) WILD-TYPE 190 55

Figure S31.  Get High-res Image Gene #8: 'amp_8q24.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_8q24.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0102 (Fisher's exact test), Q value = 0.055

Table S32.  Gene #8: 'amp_8q24.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 8(8Q24.21) MUTATED 56 0 25 96 4 2 11 12 49 35 48 16 0
AMP PEAK 8(8Q24.21) WILD-TYPE 48 1 12 76 8 0 13 3 35 20 15 8 2

Figure S32.  Get High-res Image Gene #8: 'amp_8q24.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_8q24.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.00622 (Fisher's exact test), Q value = 0.038

Table S33.  Gene #8: 'amp_8q24.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 8(8Q24.21) MUTATED 258 64
AMP PEAK 8(8Q24.21) WILD-TYPE 195 24

Figure S33.  Get High-res Image Gene #8: 'amp_8q24.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_8q24.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00565 (Fisher's exact test), Q value = 0.036

Table S34.  Gene #8: 'amp_8q24.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 8(8Q24.21) MUTATED 228 28 100 5
AMP PEAK 8(8Q24.21) WILD-TYPE 154 34 46 8

Figure S34.  Get High-res Image Gene #8: 'amp_8q24.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.0206 (Wilcoxon-test), Q value = 0.09

Table S35.  Gene #10: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
AMP PEAK 10(11P15.5) MUTATED 136 64.1 (12.2)
AMP PEAK 10(11P15.5) WILD-TYPE 476 66.9 (12.9)

Figure S35.  Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_11p15.5' versus 'TUMOR_TISSUE_SITE'

P value = 0.0761 (Fisher's exact test), Q value = 0.22

Table S36.  Gene #10: 'amp_11p15.5' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 10(11P15.5) MUTATED 90 44
AMP PEAK 10(11P15.5) WILD-TYPE 358 118

Figure S36.  Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_11p15.5' versus 'HISTOLOGICAL_TYPE'

P value = 0.00089 (Fisher's exact test), Q value = 0.0087

Table S37.  Gene #10: 'amp_11p15.5' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 10(11P15.5) MUTATED 85 4 43 1
AMP PEAK 10(11P15.5) WILD-TYPE 297 58 103 12

Figure S37.  Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_13q12.13' versus 'TUMOR_TISSUE_SITE'

P value = 0.000738 (Fisher's exact test), Q value = 0.0076

Table S38.  Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 12(13Q12.13) MUTATED 274 123
AMP PEAK 12(13Q12.13) WILD-TYPE 174 39

Figure S38.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_13q12.13' versus 'PATHOLOGIC_STAGE'

P value = 0.00013 (Fisher's exact test), Q value = 0.002

Table S39.  Gene #12: 'amp_13q12.13' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 12(13Q12.13) MUTATED 64 0 17 98 6 2 14 13 62 39 51 20 0
AMP PEAK 12(13Q12.13) WILD-TYPE 40 1 20 74 6 0 10 2 22 16 12 4 2

Figure S39.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_N_STAGE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00048

Table S40.  Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 12(13Q12.13) MUTATED 198 113 87
AMP PEAK 12(13Q12.13) WILD-TYPE 148 37 28

Figure S40.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_M_STAGE'

P value = 0.00213 (Fisher's exact test), Q value = 0.018

Table S41.  Gene #12: 'amp_13q12.13' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 12(13Q12.13) MUTATED 284 70
AMP PEAK 12(13Q12.13) WILD-TYPE 169 18

Figure S41.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_13q12.13' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S42.  Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 12(13Q12.13) MUTATED 254 19 117 5
AMP PEAK 12(13Q12.13) WILD-TYPE 128 43 29 8

Figure S42.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_13q12.13' versus 'RESIDUAL_TUMOR'

P value = 0.0399 (Fisher's exact test), Q value = 0.14

Table S43.  Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 12(13Q12.13) MUTATED 285 4 29 13
AMP PEAK 12(13Q12.13) WILD-TYPE 161 2 8 16

Figure S43.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_13q12.13' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.56e-05 (Wilcoxon-test), Q value = 0.001

Table S44.  Gene #12: 'amp_13q12.13' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 12(13Q12.13) MUTATED 383 2.5 (4.9)
AMP PEAK 12(13Q12.13) WILD-TYPE 197 1.6 (4.2)

Figure S44.  Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_13q12.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.000556 (Fisher's exact test), Q value = 0.006

Table S45.  Gene #13: 'amp_13q12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 13(13Q12.2) MUTATED 269 122
AMP PEAK 13(13Q12.2) WILD-TYPE 179 40

Figure S45.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_13q12.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00014 (Fisher's exact test), Q value = 0.0021

Table S46.  Gene #13: 'amp_13q12.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 13(13Q12.2) MUTATED 64 0 17 96 5 2 14 13 62 38 50 19 0
AMP PEAK 13(13Q12.2) WILD-TYPE 40 1 20 76 7 0 10 2 22 17 13 5 2

Figure S46.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_13q12.2' versus 'PATHOLOGY_N_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 8e-04

Table S47.  Gene #13: 'amp_13q12.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 13(13Q12.2) MUTATED 195 111 86
AMP PEAK 13(13Q12.2) WILD-TYPE 151 39 29

Figure S47.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_13q12.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00519 (Fisher's exact test), Q value = 0.034

Table S48.  Gene #13: 'amp_13q12.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 13(13Q12.2) MUTATED 280 68
AMP PEAK 13(13Q12.2) WILD-TYPE 173 20

Figure S48.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_13q12.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S49.  Gene #13: 'amp_13q12.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 13(13Q12.2) MUTATED 250 18 116 5
AMP PEAK 13(13Q12.2) WILD-TYPE 132 44 30 8

Figure S49.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_13q12.2' versus 'RESIDUAL_TUMOR'

P value = 0.0769 (Fisher's exact test), Q value = 0.22

Table S50.  Gene #13: 'amp_13q12.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 13(13Q12.2) MUTATED 281 4 28 13
AMP PEAK 13(13Q12.2) WILD-TYPE 165 2 9 16

Figure S50.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_13q12.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.25e-05 (Wilcoxon-test), Q value = 0.00098

Table S51.  Gene #13: 'amp_13q12.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 13(13Q12.2) MUTATED 378 2.5 (4.9)
AMP PEAK 13(13Q12.2) WILD-TYPE 202 1.6 (4.2)

Figure S51.  Get High-res Image Gene #13: 'amp_13q12.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_13q22.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0167 (Fisher's exact test), Q value = 0.078

Table S52.  Gene #14: 'amp_13q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 14(13Q22.1) MUTATED 276 117
AMP PEAK 14(13Q22.1) WILD-TYPE 172 45

Figure S52.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_13q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00041 (Fisher's exact test), Q value = 0.0049

Table S53.  Gene #14: 'amp_13q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 14(13Q22.1) MUTATED 65 0 21 92 5 2 15 13 61 41 49 19 0
AMP PEAK 14(13Q22.1) WILD-TYPE 39 1 16 80 7 0 9 2 23 14 14 5 2

Figure S53.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00065

Table S54.  Gene #14: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 14(13Q22.1) MUTATED 196 113 85
AMP PEAK 14(13Q22.1) WILD-TYPE 150 37 30

Figure S54.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0109 (Fisher's exact test), Q value = 0.058

Table S55.  Gene #14: 'amp_13q22.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 14(13Q22.1) MUTATED 281 67
AMP PEAK 14(13Q22.1) WILD-TYPE 172 21

Figure S55.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_13q22.1' versus 'RADIATION_THERAPY'

P value = 0.0459 (Fisher's exact test), Q value = 0.15

Table S56.  Gene #14: 'amp_13q22.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
AMP PEAK 14(13Q22.1) MUTATED 311 24
AMP PEAK 14(13Q22.1) WILD-TYPE 171 5

Figure S56.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

'amp_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S57.  Gene #14: 'amp_13q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 14(13Q22.1) MUTATED 255 19 112 4
AMP PEAK 14(13Q22.1) WILD-TYPE 127 43 34 9

Figure S57.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_13q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000246 (Wilcoxon-test), Q value = 0.0033

Table S58.  Gene #14: 'amp_13q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 14(13Q22.1) MUTATED 382 2.4 (4.7)
AMP PEAK 14(13Q22.1) WILD-TYPE 198 1.8 (4.7)

Figure S58.  Get High-res Image Gene #14: 'amp_13q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_15q26.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00259 (Fisher's exact test), Q value = 0.02

Table S59.  Gene #15: 'amp_15q26.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 15(15Q26.1) MUTATED 17 8 17
AMP PEAK 15(15Q26.1) WILD-TYPE 329 142 98

Figure S59.  Get High-res Image Gene #15: 'amp_15q26.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_15q26.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00361 (Wilcoxon-test), Q value = 0.026

Table S60.  Gene #15: 'amp_15q26.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 15(15Q26.1) MUTATED 39 4.1 (6.3)
AMP PEAK 15(15Q26.1) WILD-TYPE 541 2.1 (4.5)

Figure S60.  Get High-res Image Gene #15: 'amp_15q26.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_16p11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0011 (Fisher's exact test), Q value = 0.01

Table S61.  Gene #16: 'amp_16p11.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 16(16P11.2) MUTATED 20 1 4 37 3 0 7 8 30 22 23 8 1
AMP PEAK 16(16P11.2) WILD-TYPE 84 0 33 135 9 2 17 7 54 33 40 16 1

Figure S61.  Get High-res Image Gene #16: 'amp_16p11.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_16p11.2' versus 'PATHOLOGY_N_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00065

Table S62.  Gene #16: 'amp_16p11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 16(16P11.2) MUTATED 72 55 43
AMP PEAK 16(16P11.2) WILD-TYPE 274 95 72

Figure S62.  Get High-res Image Gene #16: 'amp_16p11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_16p11.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0494 (Fisher's exact test), Q value = 0.16

Table S63.  Gene #16: 'amp_16p11.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 16(16P11.2) MUTATED 116 32
AMP PEAK 16(16P11.2) WILD-TYPE 337 56

Figure S63.  Get High-res Image Gene #16: 'amp_16p11.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_16p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00049 (Fisher's exact test), Q value = 0.0055

Table S64.  Gene #16: 'amp_16p11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 16(16P11.2) MUTATED 115 7 47 0
AMP PEAK 16(16P11.2) WILD-TYPE 267 55 99 13

Figure S64.  Get High-res Image Gene #16: 'amp_16p11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_16p11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.85e-05 (Wilcoxon-test), Q value = 0.001

Table S65.  Gene #16: 'amp_16p11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 16(16P11.2) MUTATED 163 3.1 (5.9)
AMP PEAK 16(16P11.2) WILD-TYPE 417 1.9 (4.1)

Figure S65.  Get High-res Image Gene #16: 'amp_16p11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_17q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00297 (Fisher's exact test), Q value = 0.022

Table S66.  Gene #17: 'amp_17q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 17(17Q12) MUTATED 103 34
AMP PEAK 17(17Q12) WILD-TYPE 350 54

Figure S66.  Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_17q12' versus 'RESIDUAL_TUMOR'

P value = 0.0772 (Fisher's exact test), Q value = 0.22

Table S67.  Gene #17: 'amp_17q12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 17(17Q12) MUTATED 110 2 16 6
AMP PEAK 17(17Q12) WILD-TYPE 336 4 21 23

Figure S67.  Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_17q24.1' versus 'Time to Death'

P value = 0.0122 (logrank test), Q value = 0.064

Table S68.  Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
AMP PEAK 18(17Q24.1) MUTATED 140 19 1.0 - 148.0 (24.0)
AMP PEAK 18(17Q24.1) WILD-TYPE 454 109 0.0 - 140.4 (21.6)

Figure S68.  Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

'amp_17q24.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0698 (Fisher's exact test), Q value = 0.21

Table S69.  Gene #18: 'amp_17q24.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 18(17Q24.1) MUTATED 96 27
AMP PEAK 18(17Q24.1) WILD-TYPE 357 61

Figure S69.  Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_17q24.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0692 (Fisher's exact test), Q value = 0.21

Table S70.  Gene #18: 'amp_17q24.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 18(17Q24.1) MUTATED 94 10 38 0
AMP PEAK 18(17Q24.1) WILD-TYPE 288 52 108 13

Figure S70.  Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.0236 (Fisher's exact test), Q value = 0.099

Table S71.  Gene #19: 'amp_19q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 19(19Q12) MUTATED 91 28
AMP PEAK 19(19Q12) WILD-TYPE 362 60

Figure S71.  Get High-res Image Gene #19: 'amp_19q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_19q12' versus 'HISTOLOGICAL_TYPE'

P value = 0.023 (Fisher's exact test), Q value = 0.097

Table S72.  Gene #19: 'amp_19q12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 19(19Q12) MUTATED 84 11 44 0
AMP PEAK 19(19Q12) WILD-TYPE 298 51 102 13

Figure S72.  Get High-res Image Gene #19: 'amp_19q12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20p12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0126 (Fisher's exact test), Q value = 0.064

Table S73.  Gene #20: 'amp_20p12.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 20(20P12.1) MUTATED 50 1 10 69 4 0 9 8 35 24 42 12 1
AMP PEAK 20(20P12.1) WILD-TYPE 54 0 27 103 8 2 15 7 49 31 21 12 1

Figure S73.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_20p12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0768 (Fisher's exact test), Q value = 0.22

Table S74.  Gene #20: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 20(20P12.1) MUTATED 142 75 58
AMP PEAK 20(20P12.1) WILD-TYPE 204 75 57

Figure S74.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_20p12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000618 (Fisher's exact test), Q value = 0.0064

Table S75.  Gene #20: 'amp_20p12.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 20(20P12.1) MUTATED 186 54
AMP PEAK 20(20P12.1) WILD-TYPE 267 34

Figure S75.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_20p12.1' versus 'GENDER'

P value = 0.0283 (Fisher's exact test), Q value = 0.11

Table S76.  Gene #20: 'amp_20p12.1' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
AMP PEAK 20(20P12.1) MUTATED 117 161
AMP PEAK 20(20P12.1) WILD-TYPE 172 164

Figure S76.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #8: 'GENDER'

'amp_20p12.1' versus 'RADIATION_THERAPY'

P value = 0.0863 (Fisher's exact test), Q value = 0.24

Table S77.  Gene #20: 'amp_20p12.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
AMP PEAK 20(20P12.1) MUTATED 218 18
AMP PEAK 20(20P12.1) WILD-TYPE 264 11

Figure S77.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

'amp_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0128 (Fisher's exact test), Q value = 0.065

Table S78.  Gene #20: 'amp_20p12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 20(20P12.1) MUTATED 174 19 76 3
AMP PEAK 20(20P12.1) WILD-TYPE 208 43 70 10

Figure S78.  Get High-res Image Gene #20: 'amp_20p12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20p11.21' versus 'TUMOR_TISSUE_SITE'

P value = 0.00894 (Fisher's exact test), Q value = 0.051

Table S79.  Gene #21: 'amp_20p11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 21(20P11.21) MUTATED 250 110
AMP PEAK 21(20P11.21) WILD-TYPE 198 52

Figure S79.  Get High-res Image Gene #21: 'amp_20p11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_20p11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0185 (Fisher's exact test), Q value = 0.083

Table S80.  Gene #21: 'amp_20p11.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 21(20P11.21) MUTATED 64 1 17 96 5 1 9 12 46 31 48 16 1
AMP PEAK 21(20P11.21) WILD-TYPE 40 0 20 76 7 1 15 3 38 24 15 8 1

Figure S80.  Get High-res Image Gene #21: 'amp_20p11.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_20p11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.00135 (Fisher's exact test), Q value = 0.012

Table S81.  Gene #21: 'amp_20p11.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 21(20P11.21) MUTATED 251 65
AMP PEAK 21(20P11.21) WILD-TYPE 202 23

Figure S81.  Get High-res Image Gene #21: 'amp_20p11.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_20p11.21' versus 'GENDER'

P value = 0.0485 (Fisher's exact test), Q value = 0.16

Table S82.  Gene #21: 'amp_20p11.21' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
AMP PEAK 21(20P11.21) MUTATED 158 204
AMP PEAK 21(20P11.21) WILD-TYPE 131 121

Figure S82.  Get High-res Image Gene #21: 'amp_20p11.21' versus Clinical Feature #8: 'GENDER'

'amp_20p11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S83.  Gene #21: 'amp_20p11.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 21(20P11.21) MUTATED 226 23 105 4
AMP PEAK 21(20P11.21) WILD-TYPE 156 39 41 9

Figure S83.  Get High-res Image Gene #21: 'amp_20p11.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20q11.21' versus 'TUMOR_TISSUE_SITE'

P value = 3.27e-06 (Fisher's exact test), Q value = 0.00028

Table S84.  Gene #22: 'amp_20q11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 22(20Q11.21) MUTATED 320 144
AMP PEAK 22(20Q11.21) WILD-TYPE 128 18

Figure S84.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_20q11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0026 (Fisher's exact test), Q value = 0.02

Table S85.  Gene #22: 'amp_20q11.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 22(20Q11.21) MUTATED 79 1 22 118 6 2 18 14 68 45 56 21 1
AMP PEAK 22(20Q11.21) WILD-TYPE 25 0 15 54 6 0 6 1 16 10 7 3 1

Figure S85.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_N_STAGE'

P value = 0.00075 (Fisher's exact test), Q value = 0.0076

Table S86.  Gene #22: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 22(20Q11.21) MUTATED 243 128 93
AMP PEAK 22(20Q11.21) WILD-TYPE 103 22 22

Figure S86.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.00598 (Fisher's exact test), Q value = 0.037

Table S87.  Gene #22: 'amp_20q11.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 22(20Q11.21) MUTATED 335 77
AMP PEAK 22(20Q11.21) WILD-TYPE 118 11

Figure S87.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_20q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S88.  Gene #22: 'amp_20q11.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 22(20Q11.21) MUTATED 291 26 135 7
AMP PEAK 22(20Q11.21) WILD-TYPE 91 36 11 6

Figure S88.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20q11.21' versus 'RESIDUAL_TUMOR'

P value = 0.0707 (Fisher's exact test), Q value = 0.21

Table S89.  Gene #22: 'amp_20q11.21' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 22(20Q11.21) MUTATED 337 5 32 17
AMP PEAK 22(20Q11.21) WILD-TYPE 109 1 5 12

Figure S89.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_20q11.21' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00435 (Wilcoxon-test), Q value = 0.03

Table S90.  Gene #22: 'amp_20q11.21' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 22(20Q11.21) MUTATED 446 2.3 (4.7)
AMP PEAK 22(20Q11.21) WILD-TYPE 134 1.9 (4.8)

Figure S90.  Get High-res Image Gene #22: 'amp_20q11.21' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_20q12' versus 'TUMOR_TISSUE_SITE'

P value = 1.65e-06 (Fisher's exact test), Q value = 0.00028

Table S91.  Gene #23: 'amp_20q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 23(20Q12) MUTATED 321 145
AMP PEAK 23(20Q12) WILD-TYPE 127 17

Figure S91.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_20q12' versus 'PATHOLOGIC_STAGE'

P value = 0.00047 (Fisher's exact test), Q value = 0.0054

Table S92.  Gene #23: 'amp_20q12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 23(20Q12) MUTATED 79 1 22 119 6 2 17 14 68 45 56 23 1
AMP PEAK 23(20Q12) WILD-TYPE 25 0 15 53 6 0 7 1 16 10 7 1 1

Figure S92.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_20q12' versus 'PATHOLOGY_N_STAGE'

P value = 0.00029 (Fisher's exact test), Q value = 0.0038

Table S93.  Gene #23: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 23(20Q12) MUTATED 244 129 93
AMP PEAK 23(20Q12) WILD-TYPE 102 21 22

Figure S93.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_20q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.000893 (Fisher's exact test), Q value = 0.0087

Table S94.  Gene #23: 'amp_20q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 23(20Q12) MUTATED 335 79
AMP PEAK 23(20Q12) WILD-TYPE 118 9

Figure S94.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_20q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S95.  Gene #23: 'amp_20q12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 23(20Q12) MUTATED 293 25 136 7
AMP PEAK 23(20Q12) WILD-TYPE 89 37 10 6

Figure S95.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20q12' versus 'RESIDUAL_TUMOR'

P value = 0.0693 (Fisher's exact test), Q value = 0.21

Table S96.  Gene #23: 'amp_20q12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 23(20Q12) MUTATED 338 5 32 17
AMP PEAK 23(20Q12) WILD-TYPE 108 1 5 12

Figure S96.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_20q12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00455 (Wilcoxon-test), Q value = 0.031

Table S97.  Gene #23: 'amp_20q12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 23(20Q12) MUTATED 446 2.3 (4.6)
AMP PEAK 23(20Q12) WILD-TYPE 134 1.9 (4.9)

Figure S97.  Get High-res Image Gene #23: 'amp_20q12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'amp_20q13.12' versus 'TUMOR_TISSUE_SITE'

P value = 2.62e-06 (Fisher's exact test), Q value = 0.00028

Table S98.  Gene #24: 'amp_20q13.12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
AMP PEAK 24(20Q13.12) MUTATED 323 145
AMP PEAK 24(20Q13.12) WILD-TYPE 125 17

Figure S98.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_20q13.12' versus 'PATHOLOGIC_STAGE'

P value = 0.00024 (Fisher's exact test), Q value = 0.0033

Table S99.  Gene #24: 'amp_20q13.12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
AMP PEAK 24(20Q13.12) MUTATED 78 1 23 119 6 2 17 14 68 46 57 23 1
AMP PEAK 24(20Q13.12) WILD-TYPE 26 0 14 53 6 0 7 1 16 9 6 1 1

Figure S99.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_N_STAGE'

P value = 0.00017 (Fisher's exact test), Q value = 0.0024

Table S100.  Gene #24: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
AMP PEAK 24(20Q13.12) MUTATED 244 129 95
AMP PEAK 24(20Q13.12) WILD-TYPE 102 21 20

Figure S100.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_M_STAGE'

P value = 0.000464 (Fisher's exact test), Q value = 0.0054

Table S101.  Gene #24: 'amp_20q13.12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
AMP PEAK 24(20Q13.12) MUTATED 336 80
AMP PEAK 24(20Q13.12) WILD-TYPE 117 8

Figure S101.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'amp_20q13.12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S102.  Gene #24: 'amp_20q13.12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
AMP PEAK 24(20Q13.12) MUTATED 294 26 136 7
AMP PEAK 24(20Q13.12) WILD-TYPE 88 36 10 6

Figure S102.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'amp_20q13.12' versus 'RESIDUAL_TUMOR'

P value = 0.0698 (Fisher's exact test), Q value = 0.21

Table S103.  Gene #24: 'amp_20q13.12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
AMP PEAK 24(20Q13.12) MUTATED 339 5 32 17
AMP PEAK 24(20Q13.12) WILD-TYPE 107 1 5 12

Figure S103.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'amp_20q13.12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0014 (Wilcoxon-test), Q value = 0.012

Table S104.  Gene #24: 'amp_20q13.12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
AMP PEAK 24(20Q13.12) MUTATED 448 2.3 (4.7)
AMP PEAK 24(20Q13.12) WILD-TYPE 132 1.8 (4.8)

Figure S104.  Get High-res Image Gene #24: 'amp_20q13.12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_1p36.11' versus 'YEARS_TO_BIRTH'

P value = 0.056 (Wilcoxon-test), Q value = 0.18

Table S105.  Gene #25: 'del_1p36.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 1(1P36.11) MUTATED 243 65.3 (11.8)
DEL PEAK 1(1P36.11) WILD-TYPE 369 66.9 (13.3)

Figure S105.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1p36.11' versus 'TUMOR_TISSUE_SITE'

P value = 0.0913 (Fisher's exact test), Q value = 0.24

Table S106.  Gene #25: 'del_1p36.11' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 1(1P36.11) MUTATED 167 73
DEL PEAK 1(1P36.11) WILD-TYPE 281 89

Figure S106.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1p36.11' versus 'PATHOLOGIC_STAGE'

P value = 0.00295 (Fisher's exact test), Q value = 0.022

Table S107.  Gene #25: 'del_1p36.11' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 1(1P36.11) MUTATED 33 0 9 63 4 1 8 7 31 26 38 15 0
DEL PEAK 1(1P36.11) WILD-TYPE 71 1 28 109 8 1 16 8 53 29 25 9 2

Figure S107.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_1p36.11' versus 'PATHOLOGY_N_STAGE'

P value = 0.00461 (Fisher's exact test), Q value = 0.031

Table S108.  Gene #25: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 1(1P36.11) MUTATED 118 65 58
DEL PEAK 1(1P36.11) WILD-TYPE 228 85 57

Figure S108.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_1p36.11' versus 'PATHOLOGY_M_STAGE'

P value = 4.38e-05 (Fisher's exact test), Q value = 0.00085

Table S109.  Gene #25: 'del_1p36.11' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 1(1P36.11) MUTATED 164 53
DEL PEAK 1(1P36.11) WILD-TYPE 289 35

Figure S109.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_1p36.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.00099 (Fisher's exact test), Q value = 0.0094

Table S110.  Gene #25: 'del_1p36.11' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 1(1P36.11) MUTATED 155 11 65 7
DEL PEAK 1(1P36.11) WILD-TYPE 227 51 81 6

Figure S110.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_1p36.11' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000606 (Wilcoxon-test), Q value = 0.0064

Table S111.  Gene #25: 'del_1p36.11' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 1(1P36.11) MUTATED 229 3.1 (6.0)
DEL PEAK 1(1P36.11) WILD-TYPE 351 1.7 (3.5)

Figure S111.  Get High-res Image Gene #25: 'del_1p36.11' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_1p33' versus 'Time to Death'

P value = 0.0314 (logrank test), Q value = 0.12

Table S112.  Gene #26: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 2(1P33) MUTATED 168 46 0.0 - 129.3 (22.8)
DEL PEAK 2(1P33) WILD-TYPE 426 82 0.0 - 148.0 (21.7)

Figure S112.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

'del_1p33' versus 'PATHOLOGIC_STAGE'

P value = 0.0419 (Fisher's exact test), Q value = 0.14

Table S113.  Gene #26: 'del_1p33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 2(1P33) MUTATED 19 0 8 50 2 0 5 4 25 21 29 6 0
DEL PEAK 2(1P33) WILD-TYPE 85 1 29 122 10 2 19 11 59 34 34 18 2

Figure S113.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_1p33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0379 (Fisher's exact test), Q value = 0.13

Table S114.  Gene #26: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 2(1P33) MUTATED 85 51 39
DEL PEAK 2(1P33) WILD-TYPE 261 99 76

Figure S114.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_1p33' versus 'PATHOLOGY_M_STAGE'

P value = 0.0143 (Fisher's exact test), Q value = 0.07

Table S115.  Gene #26: 'del_1p33' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 2(1P33) MUTATED 120 35
DEL PEAK 2(1P33) WILD-TYPE 333 53

Figure S115.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_1p33' versus 'HISTOLOGICAL_TYPE'

P value = 0.00995 (Fisher's exact test), Q value = 0.054

Table S116.  Gene #26: 'del_1p33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 2(1P33) MUTATED 113 9 49 1
DEL PEAK 2(1P33) WILD-TYPE 269 53 97 12

Figure S116.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_1p33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00987 (Wilcoxon-test), Q value = 0.054

Table S117.  Gene #26: 'del_1p33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 2(1P33) MUTATED 165 3.0 (6.0)
DEL PEAK 2(1P33) WILD-TYPE 415 1.9 (4.0)

Figure S117.  Get High-res Image Gene #26: 'del_1p33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_1p13.2' versus 'Time to Death'

P value = 0.0199 (logrank test), Q value = 0.088

Table S118.  Gene #27: 'del_1p13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 3(1P13.2) MUTATED 168 46 0.9 - 131.5 (22.2)
DEL PEAK 3(1P13.2) WILD-TYPE 426 82 0.0 - 148.0 (22.0)

Figure S118.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #1: 'Time to Death'

'del_1p13.2' versus 'PATHOLOGIC_STAGE'

P value = 0.015 (Fisher's exact test), Q value = 0.073

Table S119.  Gene #27: 'del_1p13.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 3(1P13.2) MUTATED 19 0 8 48 2 1 5 4 23 22 30 6 0
DEL PEAK 3(1P13.2) WILD-TYPE 85 1 29 124 10 1 19 11 61 33 33 18 2

Figure S119.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_1p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0132 (Fisher's exact test), Q value = 0.066

Table S120.  Gene #27: 'del_1p13.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 3(1P13.2) MUTATED 84 46 44
DEL PEAK 3(1P13.2) WILD-TYPE 262 104 71

Figure S120.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_1p13.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00996 (Fisher's exact test), Q value = 0.054

Table S121.  Gene #27: 'del_1p13.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 3(1P13.2) MUTATED 121 36
DEL PEAK 3(1P13.2) WILD-TYPE 332 52

Figure S121.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_1p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.051 (Fisher's exact test), Q value = 0.16

Table S122.  Gene #27: 'del_1p13.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 3(1P13.2) MUTATED 111 10 49 2
DEL PEAK 3(1P13.2) WILD-TYPE 271 52 97 11

Figure S122.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_1p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000779 (Wilcoxon-test), Q value = 0.0078

Table S123.  Gene #27: 'del_1p13.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 3(1P13.2) MUTATED 163 3.2 (5.3)
DEL PEAK 3(1P13.2) WILD-TYPE 417 1.8 (4.4)

Figure S123.  Get High-res Image Gene #27: 'del_1p13.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_2p12' versus 'TUMOR_TISSUE_SITE'

P value = 0.000561 (Fisher's exact test), Q value = 0.006

Table S124.  Gene #28: 'del_2p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 4(2P12) MUTATED 8 13
DEL PEAK 4(2P12) WILD-TYPE 440 149

Figure S124.  Get High-res Image Gene #28: 'del_2p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_2p12' versus 'RADIATION_THERAPY'

P value = 0.0754 (Fisher's exact test), Q value = 0.22

Table S125.  Gene #28: 'del_2p12' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 4(2P12) MUTATED 15 3
DEL PEAK 4(2P12) WILD-TYPE 467 26

Figure S125.  Get High-res Image Gene #28: 'del_2p12' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_2p12' versus 'HISTOLOGICAL_TYPE'

P value = 0.00608 (Fisher's exact test), Q value = 0.037

Table S126.  Gene #28: 'del_2p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 4(2P12) MUTATED 8 0 11 1
DEL PEAK 4(2P12) WILD-TYPE 374 62 135 12

Figure S126.  Get High-res Image Gene #28: 'del_2p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_3p26.3' versus 'Time to Death'

P value = 0.0436 (logrank test), Q value = 0.15

Table S127.  Gene #30: 'del_3p26.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 6(3P26.3) MUTATED 91 21 0.2 - 85.0 (17.0)
DEL PEAK 6(3P26.3) WILD-TYPE 503 107 0.0 - 148.0 (23.9)

Figure S127.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #1: 'Time to Death'

'del_3p26.3' versus 'PATHOLOGIC_STAGE'

P value = 0.0425 (Fisher's exact test), Q value = 0.15

Table S128.  Gene #30: 'del_3p26.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 6(3P26.3) MUTATED 8 0 4 24 0 0 4 2 13 8 20 5 0
DEL PEAK 6(3P26.3) WILD-TYPE 96 1 33 148 12 2 20 13 71 47 43 19 2

Figure S128.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_3p26.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.0134 (Fisher's exact test), Q value = 0.067

Table S129.  Gene #30: 'del_3p26.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 6(3P26.3) MUTATED 39 28 24
DEL PEAK 6(3P26.3) WILD-TYPE 307 122 91

Figure S129.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_3p26.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.000244 (Fisher's exact test), Q value = 0.0033

Table S130.  Gene #30: 'del_3p26.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 6(3P26.3) MUTATED 55 25
DEL PEAK 6(3P26.3) WILD-TYPE 398 63

Figure S130.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_3p26.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0381 (Fisher's exact test), Q value = 0.13

Table S131.  Gene #30: 'del_3p26.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 6(3P26.3) MUTATED 66 4 16 3
DEL PEAK 6(3P26.3) WILD-TYPE 316 58 130 10

Figure S131.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_3p26.3' versus 'RESIDUAL_TUMOR'

P value = 0.0738 (Fisher's exact test), Q value = 0.22

Table S132.  Gene #30: 'del_3p26.3' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 6(3P26.3) MUTATED 63 0 11 5
DEL PEAK 6(3P26.3) WILD-TYPE 383 6 26 24

Figure S132.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_3p26.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00678 (Wilcoxon-test), Q value = 0.041

Table S133.  Gene #30: 'del_3p26.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 6(3P26.3) MUTATED 85 3.5 (6.3)
DEL PEAK 6(3P26.3) WILD-TYPE 495 2.0 (4.3)

Figure S133.  Get High-res Image Gene #30: 'del_3p26.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_3p14.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.016 (Fisher's exact test), Q value = 0.075

Table S134.  Gene #31: 'del_3p14.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 7(3P14.2) MUTATED 76 25
DEL PEAK 7(3P14.2) WILD-TYPE 377 63

Figure S134.  Get High-res Image Gene #31: 'del_3p14.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_3q26.31' versus 'PATHOLOGIC_STAGE'

P value = 0.0483 (Fisher's exact test), Q value = 0.16

Table S135.  Gene #32: 'del_3q26.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 8(3Q26.31) MUTATED 5 0 2 22 0 0 2 0 5 9 13 4 0
DEL PEAK 8(3Q26.31) WILD-TYPE 99 1 35 150 12 2 22 15 79 46 50 20 2

Figure S135.  Get High-res Image Gene #32: 'del_3q26.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_3q26.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0734 (Fisher's exact test), Q value = 0.22

Table S136.  Gene #32: 'del_3q26.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 8(3Q26.31) MUTATED 31 14 19
DEL PEAK 8(3Q26.31) WILD-TYPE 315 136 96

Figure S136.  Get High-res Image Gene #32: 'del_3q26.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_3q26.31' versus 'PATHOLOGY_M_STAGE'

P value = 0.0209 (Fisher's exact test), Q value = 0.09

Table S137.  Gene #32: 'del_3q26.31' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 8(3Q26.31) MUTATED 41 16
DEL PEAK 8(3Q26.31) WILD-TYPE 412 72

Figure S137.  Get High-res Image Gene #32: 'del_3q26.31' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_3q26.31' versus 'HISTOLOGICAL_TYPE'

P value = 0.00951 (Fisher's exact test), Q value = 0.054

Table S138.  Gene #32: 'del_3q26.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 8(3Q26.31) MUTATED 43 3 12 5
DEL PEAK 8(3Q26.31) WILD-TYPE 339 59 134 8

Figure S138.  Get High-res Image Gene #32: 'del_3q26.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_3q26.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0939 (Wilcoxon-test), Q value = 0.25

Table S139.  Gene #32: 'del_3q26.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 8(3Q26.31) MUTATED 60 3.4 (6.4)
DEL PEAK 8(3Q26.31) WILD-TYPE 520 2.1 (4.5)

Figure S139.  Get High-res Image Gene #32: 'del_3q26.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_4p16.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0789 (Fisher's exact test), Q value = 0.22

Table S140.  Gene #33: 'del_4p16.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 9(4P16.1) MUTATED 137 62
DEL PEAK 9(4P16.1) WILD-TYPE 311 100

Figure S140.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_4p16.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00295 (Fisher's exact test), Q value = 0.022

Table S141.  Gene #33: 'del_4p16.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 9(4P16.1) MUTATED 29 0 8 49 3 0 5 8 25 25 34 10 0
DEL PEAK 9(4P16.1) WILD-TYPE 75 1 29 123 9 2 19 7 59 30 29 14 2

Figure S141.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_4p16.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00109 (Fisher's exact test), Q value = 0.01

Table S142.  Gene #33: 'del_4p16.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 9(4P16.1) MUTATED 93 56 51
DEL PEAK 9(4P16.1) WILD-TYPE 253 94 64

Figure S142.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_4p16.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00113 (Fisher's exact test), Q value = 0.01

Table S143.  Gene #33: 'del_4p16.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 9(4P16.1) MUTATED 133 42
DEL PEAK 9(4P16.1) WILD-TYPE 320 46

Figure S143.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_4p16.1' versus 'GENDER'

P value = 0.0709 (Fisher's exact test), Q value = 0.21

Table S144.  Gene #33: 'del_4p16.1' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 9(4P16.1) MUTATED 84 117
DEL PEAK 9(4P16.1) WILD-TYPE 205 208

Figure S144.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #8: 'GENDER'

'del_4p16.1' versus 'RADIATION_THERAPY'

P value = 0.0403 (Fisher's exact test), Q value = 0.14

Table S145.  Gene #33: 'del_4p16.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 9(4P16.1) MUTATED 154 15
DEL PEAK 9(4P16.1) WILD-TYPE 328 14

Figure S145.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_4p16.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.024 (Fisher's exact test), Q value = 0.099

Table S146.  Gene #33: 'del_4p16.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 9(4P16.1) MUTATED 126 11 57 4
DEL PEAK 9(4P16.1) WILD-TYPE 256 51 89 9

Figure S146.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_4p16.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00039 (Wilcoxon-test), Q value = 0.0049

Table S147.  Gene #33: 'del_4p16.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 9(4P16.1) MUTATED 191 3.2 (5.5)
DEL PEAK 9(4P16.1) WILD-TYPE 389 1.8 (4.2)

Figure S147.  Get High-res Image Gene #33: 'del_4p16.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_4q22.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0279 (Fisher's exact test), Q value = 0.11

Table S148.  Gene #34: 'del_4q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 10(4Q22.1) MUTATED 149 70
DEL PEAK 10(4Q22.1) WILD-TYPE 299 92

Figure S148.  Get High-res Image Gene #34: 'del_4q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_4q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0212 (Fisher's exact test), Q value = 0.091

Table S149.  Gene #34: 'del_4q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 10(4Q22.1) MUTATED 26 0 11 59 3 0 5 7 37 29 27 10 1
DEL PEAK 10(4Q22.1) WILD-TYPE 78 1 26 113 9 2 19 8 47 26 36 14 1

Figure S149.  Get High-res Image Gene #34: 'del_4q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_4q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00053 (Fisher's exact test), Q value = 0.0058

Table S150.  Gene #34: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 10(4Q22.1) MUTATED 103 65 54
DEL PEAK 10(4Q22.1) WILD-TYPE 243 85 61

Figure S150.  Get High-res Image Gene #34: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_4q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00231 (Fisher's exact test), Q value = 0.019

Table S151.  Gene #34: 'del_4q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 10(4Q22.1) MUTATED 138 11 65 4
DEL PEAK 10(4Q22.1) WILD-TYPE 244 51 81 9

Figure S151.  Get High-res Image Gene #34: 'del_4q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_4q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000315 (Wilcoxon-test), Q value = 0.004

Table S152.  Gene #34: 'del_4q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 10(4Q22.1) MUTATED 211 3.1 (5.4)
DEL PEAK 10(4Q22.1) WILD-TYPE 369 1.7 (4.1)

Figure S152.  Get High-res Image Gene #34: 'del_4q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_4q35.1' versus 'PATHOLOGIC_STAGE'

P value = 0.051 (Fisher's exact test), Q value = 0.16

Table S153.  Gene #35: 'del_4q35.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 11(4Q35.1) MUTATED 31 0 10 62 2 0 7 7 35 30 30 10 1
DEL PEAK 11(4Q35.1) WILD-TYPE 73 1 27 110 10 2 17 8 49 25 33 14 1

Figure S153.  Get High-res Image Gene #35: 'del_4q35.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_4q35.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00082 (Fisher's exact test), Q value = 0.0082

Table S154.  Gene #35: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 11(4Q35.1) MUTATED 109 64 57
DEL PEAK 11(4Q35.1) WILD-TYPE 237 86 58

Figure S154.  Get High-res Image Gene #35: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_4q35.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0712 (Fisher's exact test), Q value = 0.21

Table S155.  Gene #35: 'del_4q35.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 11(4Q35.1) MUTATED 163 41
DEL PEAK 11(4Q35.1) WILD-TYPE 290 47

Figure S155.  Get High-res Image Gene #35: 'del_4q35.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_4q35.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0483 (Fisher's exact test), Q value = 0.16

Table S156.  Gene #35: 'del_4q35.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 11(4Q35.1) MUTATED 141 16 65 3
DEL PEAK 11(4Q35.1) WILD-TYPE 241 46 81 10

Figure S156.  Get High-res Image Gene #35: 'del_4q35.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_4q35.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000429 (Wilcoxon-test), Q value = 0.0051

Table S157.  Gene #35: 'del_4q35.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 11(4Q35.1) MUTATED 219 2.8 (4.9)
DEL PEAK 11(4Q35.1) WILD-TYPE 361 1.8 (4.5)

Figure S157.  Get High-res Image Gene #35: 'del_4q35.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_5q12.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0277 (Fisher's exact test), Q value = 0.11

Table S158.  Gene #36: 'del_5q12.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 12(5Q12.1) MUTATED 105 53
DEL PEAK 12(5Q12.1) WILD-TYPE 343 109

Figure S158.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_5q12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0107 (Fisher's exact test), Q value = 0.057

Table S159.  Gene #36: 'del_5q12.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 12(5Q12.1) MUTATED 25 0 8 35 1 0 4 8 19 20 20 12 1
DEL PEAK 12(5Q12.1) WILD-TYPE 79 1 29 137 11 2 20 7 65 35 43 12 1

Figure S159.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_5q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0326 (Fisher's exact test), Q value = 0.12

Table S160.  Gene #36: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 12(5Q12.1) MUTATED 76 44 38
DEL PEAK 12(5Q12.1) WILD-TYPE 270 106 77

Figure S160.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_5q12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0105 (Fisher's exact test), Q value = 0.057

Table S161.  Gene #36: 'del_5q12.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 12(5Q12.1) MUTATED 104 32
DEL PEAK 12(5Q12.1) WILD-TYPE 349 56

Figure S161.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_5q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00779 (Fisher's exact test), Q value = 0.046

Table S162.  Gene #36: 'del_5q12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 12(5Q12.1) MUTATED 97 8 50 2
DEL PEAK 12(5Q12.1) WILD-TYPE 285 54 96 11

Figure S162.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_5q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0158 (Wilcoxon-test), Q value = 0.075

Table S163.  Gene #36: 'del_5q12.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 12(5Q12.1) MUTATED 152 3.0 (5.6)
DEL PEAK 12(5Q12.1) WILD-TYPE 428 1.9 (4.3)

Figure S163.  Get High-res Image Gene #36: 'del_5q12.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_5q21.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00245 (Fisher's exact test), Q value = 0.02

Table S164.  Gene #37: 'del_5q21.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 13(5Q21.2) MUTATED 26 0 9 41 1 0 5 9 29 23 24 13 1
DEL PEAK 13(5Q21.2) WILD-TYPE 78 1 28 131 11 2 19 6 55 32 39 11 1

Figure S164.  Get High-res Image Gene #37: 'del_5q21.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_5q21.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00147 (Fisher's exact test), Q value = 0.013

Table S165.  Gene #37: 'del_5q21.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 13(5Q21.2) MUTATED 85 56 45
DEL PEAK 13(5Q21.2) WILD-TYPE 261 94 70

Figure S165.  Get High-res Image Gene #37: 'del_5q21.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_5q21.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0108 (Fisher's exact test), Q value = 0.057

Table S166.  Gene #37: 'del_5q21.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 13(5Q21.2) MUTATED 126 37
DEL PEAK 13(5Q21.2) WILD-TYPE 327 51

Figure S166.  Get High-res Image Gene #37: 'del_5q21.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_5q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0623 (Fisher's exact test), Q value = 0.19

Table S167.  Gene #37: 'del_5q21.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 13(5Q21.2) MUTATED 117 14 53 1
DEL PEAK 13(5Q21.2) WILD-TYPE 265 48 93 12

Figure S167.  Get High-res Image Gene #37: 'del_5q21.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_5q21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00142 (Wilcoxon-test), Q value = 0.012

Table S168.  Gene #37: 'del_5q21.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 13(5Q21.2) MUTATED 179 2.8 (4.9)
DEL PEAK 13(5Q21.2) WILD-TYPE 401 2.0 (4.6)

Figure S168.  Get High-res Image Gene #37: 'del_5q21.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_5q22.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.0747 (Fisher's exact test), Q value = 0.22

Table S169.  Gene #38: 'del_5q22.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 14(5Q22.2) MUTATED 129 59
DEL PEAK 14(5Q22.2) WILD-TYPE 319 103

Figure S169.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_5q22.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0154 (Fisher's exact test), Q value = 0.074

Table S170.  Gene #38: 'del_5q22.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 14(5Q22.2) MUTATED 27 0 10 45 0 0 5 8 28 22 24 12 1
DEL PEAK 14(5Q22.2) WILD-TYPE 77 1 27 127 12 2 19 7 56 33 39 12 1

Figure S170.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_5q22.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0348 (Fisher's exact test), Q value = 0.13

Table S171.  Gene #38: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 14(5Q22.2) MUTATED 92 53 43
DEL PEAK 14(5Q22.2) WILD-TYPE 254 97 72

Figure S171.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_5q22.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.016 (Fisher's exact test), Q value = 0.075

Table S172.  Gene #38: 'del_5q22.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 14(5Q22.2) MUTATED 126 36
DEL PEAK 14(5Q22.2) WILD-TYPE 327 52

Figure S172.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_5q22.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0458 (Fisher's exact test), Q value = 0.15

Table S173.  Gene #38: 'del_5q22.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 14(5Q22.2) MUTATED 116 13 56 2
DEL PEAK 14(5Q22.2) WILD-TYPE 266 49 90 11

Figure S173.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_5q22.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0201 (Wilcoxon-test), Q value = 0.089

Table S174.  Gene #38: 'del_5q22.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 14(5Q22.2) MUTATED 179 2.7 (4.9)
DEL PEAK 14(5Q22.2) WILD-TYPE 401 2.0 (4.6)

Figure S174.  Get High-res Image Gene #38: 'del_5q22.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_5q23.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0368 (Fisher's exact test), Q value = 0.13

Table S175.  Gene #39: 'del_5q23.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 15(5Q23.3) MUTATED 107 53
DEL PEAK 15(5Q23.3) WILD-TYPE 341 109

Figure S175.  Get High-res Image Gene #39: 'del_5q23.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_5q23.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00527 (Fisher's exact test), Q value = 0.034

Table S176.  Gene #39: 'del_5q23.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 15(5Q23.3) MUTATED 23 0 8 37 0 0 4 8 23 23 18 11 0
DEL PEAK 15(5Q23.3) WILD-TYPE 81 1 29 135 12 2 20 7 61 32 45 13 2

Figure S176.  Get High-res Image Gene #39: 'del_5q23.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_5q23.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00603 (Fisher's exact test), Q value = 0.037

Table S177.  Gene #39: 'del_5q23.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 15(5Q23.3) MUTATED 74 46 40
DEL PEAK 15(5Q23.3) WILD-TYPE 272 104 75

Figure S177.  Get High-res Image Gene #39: 'del_5q23.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_5q23.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0176 (Fisher's exact test), Q value = 0.081

Table S178.  Gene #39: 'del_5q23.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 15(5Q23.3) MUTATED 98 9 50 2
DEL PEAK 15(5Q23.3) WILD-TYPE 284 53 96 11

Figure S178.  Get High-res Image Gene #39: 'del_5q23.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_5q23.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00514 (Wilcoxon-test), Q value = 0.034

Table S179.  Gene #39: 'del_5q23.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 15(5Q23.3) MUTATED 154 2.9 (5.2)
DEL PEAK 15(5Q23.3) WILD-TYPE 426 2.0 (4.5)

Figure S179.  Get High-res Image Gene #39: 'del_5q23.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_6p25.3' versus 'YEARS_TO_BIRTH'

P value = 0.043 (Wilcoxon-test), Q value = 0.15

Table S180.  Gene #40: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 16(6P25.3) MUTATED 79 68.8 (12.3)
DEL PEAK 16(6P25.3) WILD-TYPE 533 65.9 (12.8)

Figure S180.  Get High-res Image Gene #40: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'GENDER'

P value = 0.0535 (Fisher's exact test), Q value = 0.17

Table S181.  Gene #40: 'del_6p25.3' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 16(6P25.3) MUTATED 29 50
DEL PEAK 16(6P25.3) WILD-TYPE 260 275

Figure S181.  Get High-res Image Gene #40: 'del_6p25.3' versus Clinical Feature #8: 'GENDER'

'del_6p25.3' versus 'RADIATION_THERAPY'

P value = 0.0856 (Fisher's exact test), Q value = 0.23

Table S182.  Gene #40: 'del_6p25.3' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 16(6P25.3) MUTATED 60 7
DEL PEAK 16(6P25.3) WILD-TYPE 422 22

Figure S182.  Get High-res Image Gene #40: 'del_6p25.3' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_6q26' versus 'Time to Death'

P value = 0.0376 (logrank test), Q value = 0.13

Table S183.  Gene #41: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 17(6Q26) MUTATED 87 24 0.2 - 131.5 (18.3)
DEL PEAK 17(6Q26) WILD-TYPE 507 104 0.0 - 148.0 (22.4)

Figure S183.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

'del_6q26' versus 'PATHOLOGY_N_STAGE'

P value = 0.00152 (Fisher's exact test), Q value = 0.013

Table S184.  Gene #41: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 17(6Q26) MUTATED 42 18 30
DEL PEAK 17(6Q26) WILD-TYPE 304 132 85

Figure S184.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_6q26' versus 'PATHOLOGY_M_STAGE'

P value = 0.0936 (Fisher's exact test), Q value = 0.25

Table S185.  Gene #41: 'del_6q26' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 17(6Q26) MUTATED 59 18
DEL PEAK 17(6Q26) WILD-TYPE 394 70

Figure S185.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_6q26' versus 'RADIATION_THERAPY'

P value = 0.0252 (Fisher's exact test), Q value = 0.1

Table S186.  Gene #41: 'del_6q26' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 17(6Q26) MUTATED 66 9
DEL PEAK 17(6Q26) WILD-TYPE 416 20

Figure S186.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_6q26' versus 'HISTOLOGICAL_TYPE'

P value = 0.0315 (Fisher's exact test), Q value = 0.12

Table S187.  Gene #41: 'del_6q26' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 17(6Q26) MUTATED 52 8 22 6
DEL PEAK 17(6Q26) WILD-TYPE 330 54 124 7

Figure S187.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_6q26' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00208 (Wilcoxon-test), Q value = 0.018

Table S188.  Gene #41: 'del_6q26' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 17(6Q26) MUTATED 85 3.8 (6.0)
DEL PEAK 17(6Q26) WILD-TYPE 495 2.0 (4.4)

Figure S188.  Get High-res Image Gene #41: 'del_6q26' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_7q31.1' versus 'RADIATION_THERAPY'

P value = 0.0472 (Fisher's exact test), Q value = 0.16

Table S189.  Gene #42: 'del_7q31.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 18(7Q31.1) MUTATED 12 3
DEL PEAK 18(7Q31.1) WILD-TYPE 470 26

Figure S189.  Get High-res Image Gene #42: 'del_7q31.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_7q31.1' versus 'ETHNICITY'

P value = 0.00822 (Fisher's exact test), Q value = 0.048

Table S190.  Gene #42: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 5 352
DEL PEAK 18(7Q31.1) MUTATED 2 9
DEL PEAK 18(7Q31.1) WILD-TYPE 3 343

Figure S190.  Get High-res Image Gene #42: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

'del_8p23.2' versus 'Time to Death'

P value = 0.0779 (logrank test), Q value = 0.22

Table S191.  Gene #43: 'del_8p23.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 19(8P23.2) MUTATED 280 67 0.0 - 140.4 (23.3)
DEL PEAK 19(8P23.2) WILD-TYPE 314 61 0.0 - 148.0 (21.4)

Figure S191.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #1: 'Time to Death'

'del_8p23.2' versus 'TUMOR_TISSUE_SITE'

P value = 7.27e-05 (Fisher's exact test), Q value = 0.0012

Table S192.  Gene #43: 'del_8p23.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 19(8P23.2) MUTATED 188 98
DEL PEAK 19(8P23.2) WILD-TYPE 260 64

Figure S192.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_8p23.2' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S193.  Gene #43: 'del_8p23.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 19(8P23.2) MUTATED 40 0 13 62 3 1 11 8 45 34 46 13 1
DEL PEAK 19(8P23.2) WILD-TYPE 64 1 24 110 9 1 13 7 39 21 17 11 1

Figure S193.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_8p23.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.0828 (Fisher's exact test), Q value = 0.23

Table S194.  Gene #43: 'del_8p23.2' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 20 105 417 69
DEL PEAK 19(8P23.2) MUTATED 4 47 202 34
DEL PEAK 19(8P23.2) WILD-TYPE 16 58 215 35

Figure S194.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

'del_8p23.2' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S195.  Gene #43: 'del_8p23.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 19(8P23.2) MUTATED 132 81 73
DEL PEAK 19(8P23.2) WILD-TYPE 214 69 42

Figure S195.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_8p23.2' versus 'PATHOLOGY_M_STAGE'

P value = 6.27e-05 (Fisher's exact test), Q value = 0.001

Table S196.  Gene #43: 'del_8p23.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 19(8P23.2) MUTATED 197 59
DEL PEAK 19(8P23.2) WILD-TYPE 256 29

Figure S196.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_8p23.2' versus 'GENDER'

P value = 0.0291 (Fisher's exact test), Q value = 0.12

Table S197.  Gene #43: 'del_8p23.2' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 19(8P23.2) MUTATED 122 166
DEL PEAK 19(8P23.2) WILD-TYPE 167 159

Figure S197.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #8: 'GENDER'

'del_8p23.2' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00048

Table S198.  Gene #43: 'del_8p23.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 19(8P23.2) MUTATED 170 15 89 7
DEL PEAK 19(8P23.2) WILD-TYPE 212 47 57 6

Figure S198.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_8p23.2' versus 'RESIDUAL_TUMOR'

P value = 0.00577 (Fisher's exact test), Q value = 0.036

Table S199.  Gene #43: 'del_8p23.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 19(8P23.2) MUTATED 199 3 26 9
DEL PEAK 19(8P23.2) WILD-TYPE 247 3 11 20

Figure S199.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_8p23.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 3.47e-06 (Wilcoxon-test), Q value = 0.00028

Table S200.  Gene #43: 'del_8p23.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 19(8P23.2) MUTATED 277 3.0 (5.7)
DEL PEAK 19(8P23.2) WILD-TYPE 303 1.5 (3.3)

Figure S200.  Get High-res Image Gene #43: 'del_8p23.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_8p22' versus 'Time to Death'

P value = 0.0175 (logrank test), Q value = 0.081

Table S201.  Gene #44: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 20(8P22) MUTATED 293 74 0.0 - 148.0 (23.5)
DEL PEAK 20(8P22) WILD-TYPE 301 54 0.0 - 139.2 (21.1)

Figure S201.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

'del_8p22' versus 'TUMOR_TISSUE_SITE'

P value = 0.000476 (Fisher's exact test), Q value = 0.0054

Table S202.  Gene #44: 'del_8p22' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 20(8P22) MUTATED 201 99
DEL PEAK 20(8P22) WILD-TYPE 247 63

Figure S202.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_8p22' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S203.  Gene #44: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 20(8P22) MUTATED 40 0 14 64 3 1 12 9 48 37 46 16 1
DEL PEAK 20(8P22) WILD-TYPE 64 1 23 108 9 1 12 6 36 18 17 8 1

Figure S203.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_8p22' versus 'PATHOLOGY_T_STAGE'

P value = 0.03 (Fisher's exact test), Q value = 0.12

Table S204.  Gene #44: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 20 105 417 69
DEL PEAK 20(8P22) MUTATED 4 47 213 37
DEL PEAK 20(8P22) WILD-TYPE 16 58 204 32

Figure S204.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

'del_8p22' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S205.  Gene #44: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 20(8P22) MUTATED 136 85 79
DEL PEAK 20(8P22) WILD-TYPE 210 65 36

Figure S205.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_8p22' versus 'PATHOLOGY_M_STAGE'

P value = 2.29e-05 (Fisher's exact test), Q value = 0.00054

Table S206.  Gene #44: 'del_8p22' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 20(8P22) MUTATED 207 62
DEL PEAK 20(8P22) WILD-TYPE 246 26

Figure S206.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_8p22' versus 'HISTOLOGICAL_TYPE'

P value = 5e-05 (Fisher's exact test), Q value = 0.00096

Table S207.  Gene #44: 'del_8p22' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 20(8P22) MUTATED 182 16 90 7
DEL PEAK 20(8P22) WILD-TYPE 200 46 56 6

Figure S207.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_8p22' versus 'RESIDUAL_TUMOR'

P value = 0.00966 (Fisher's exact test), Q value = 0.054

Table S208.  Gene #44: 'del_8p22' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 20(8P22) MUTATED 212 3 26 9
DEL PEAK 20(8P22) WILD-TYPE 234 3 11 20

Figure S208.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_8p22' versus 'NUMBER_OF_LYMPH_NODES'

P value = 6.31e-08 (Wilcoxon-test), Q value = 2e-05

Table S209.  Gene #44: 'del_8p22' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 20(8P22) MUTATED 291 3.0 (5.6)
DEL PEAK 20(8P22) WILD-TYPE 289 1.4 (3.3)

Figure S209.  Get High-res Image Gene #44: 'del_8p22' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_8q11.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0381 (Fisher's exact test), Q value = 0.13

Table S210.  Gene #45: 'del_8q11.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 21(8Q11.1) MUTATED 18 16 12
DEL PEAK 21(8Q11.1) WILD-TYPE 328 134 103

Figure S210.  Get High-res Image Gene #45: 'del_8q11.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_8q11.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.081 (Fisher's exact test), Q value = 0.23

Table S211.  Gene #45: 'del_8q11.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 21(8Q11.1) MUTATED 31 11
DEL PEAK 21(8Q11.1) WILD-TYPE 422 77

Figure S211.  Get High-res Image Gene #45: 'del_8q11.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_8q11.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0253 (Wilcoxon-test), Q value = 0.1

Table S212.  Gene #45: 'del_8q11.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 21(8Q11.1) MUTATED 47 2.7 (3.8)
DEL PEAK 21(8Q11.1) WILD-TYPE 533 2.2 (4.8)

Figure S212.  Get High-res Image Gene #45: 'del_8q11.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_9p21.3' versus 'GENDER'

P value = 0.0816 (Fisher's exact test), Q value = 0.23

Table S213.  Gene #46: 'del_9p21.3' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 22(9P21.3) MUTATED 33 54
DEL PEAK 22(9P21.3) WILD-TYPE 256 271

Figure S213.  Get High-res Image Gene #46: 'del_9p21.3' versus Clinical Feature #8: 'GENDER'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0318 (Fisher's exact test), Q value = 0.12

Table S214.  Gene #46: 'del_9p21.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 22(9P21.3) MUTATED 58 2 24 1
DEL PEAK 22(9P21.3) WILD-TYPE 324 60 122 12

Figure S214.  Get High-res Image Gene #46: 'del_9p21.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_9p21.3' versus 'RESIDUAL_TUMOR'

P value = 0.0327 (Fisher's exact test), Q value = 0.12

Table S215.  Gene #46: 'del_9p21.3' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 22(9P21.3) MUTATED 55 3 8 4
DEL PEAK 22(9P21.3) WILD-TYPE 391 3 29 25

Figure S215.  Get High-res Image Gene #46: 'del_9p21.3' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_9p21.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0702 (Wilcoxon-test), Q value = 0.21

Table S216.  Gene #46: 'del_9p21.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 22(9P21.3) MUTATED 79 2.7 (5.0)
DEL PEAK 22(9P21.3) WILD-TYPE 501 2.1 (4.7)

Figure S216.  Get High-res Image Gene #46: 'del_9p21.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_10p15.3' versus 'YEARS_TO_BIRTH'

P value = 0.0229 (Wilcoxon-test), Q value = 0.097

Table S217.  Gene #47: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 23(10P15.3) MUTATED 113 63.6 (13.3)
DEL PEAK 23(10P15.3) WILD-TYPE 499 66.9 (12.6)

Figure S217.  Get High-res Image Gene #47: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p15.3' versus 'PATHOLOGIC_STAGE'

P value = 0.0258 (Fisher's exact test), Q value = 0.1

Table S218.  Gene #47: 'del_10p15.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 23(10P15.3) MUTATED 19 0 7 21 1 1 1 6 16 13 17 6 1
DEL PEAK 23(10P15.3) WILD-TYPE 85 1 30 151 11 1 23 9 68 42 46 18 1

Figure S218.  Get High-res Image Gene #47: 'del_10p15.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_10p15.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.0299 (Fisher's exact test), Q value = 0.12

Table S219.  Gene #47: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 23(10P15.3) MUTATED 52 32 29
DEL PEAK 23(10P15.3) WILD-TYPE 294 118 86

Figure S219.  Get High-res Image Gene #47: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_10p15.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0363 (Fisher's exact test), Q value = 0.13

Table S220.  Gene #47: 'del_10p15.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 23(10P15.3) MUTATED 78 24
DEL PEAK 23(10P15.3) WILD-TYPE 375 64

Figure S220.  Get High-res Image Gene #47: 'del_10p15.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_10p15.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00491 (Wilcoxon-test), Q value = 0.033

Table S221.  Gene #47: 'del_10p15.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 23(10P15.3) MUTATED 109 3.2 (6.5)
DEL PEAK 23(10P15.3) WILD-TYPE 471 2.0 (4.2)

Figure S221.  Get High-res Image Gene #47: 'del_10p15.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'YEARS_TO_BIRTH'

P value = 0.0359 (Wilcoxon-test), Q value = 0.13

Table S222.  Gene #48: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 24(10Q21.1) MUTATED 138 64.1 (12.9)
DEL PEAK 24(10Q21.1) WILD-TYPE 474 66.9 (12.7)

Figure S222.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0876 (Fisher's exact test), Q value = 0.24

Table S223.  Gene #48: 'del_10q21.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 24(10Q21.1) MUTATED 20 0 8 32 2 1 1 5 20 18 20 6 1
DEL PEAK 24(10Q21.1) WILD-TYPE 84 1 29 140 10 1 23 10 64 37 43 18 1

Figure S223.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_10q21.1' versus 'RADIATION_THERAPY'

P value = 0.00099 (Fisher's exact test), Q value = 0.0094

Table S224.  Gene #48: 'del_10q21.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 24(10Q21.1) MUTATED 106 15
DEL PEAK 24(10Q21.1) WILD-TYPE 376 14

Figure S224.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_10q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0264 (Fisher's exact test), Q value = 0.11

Table S225.  Gene #48: 'del_10q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 24(10Q21.1) MUTATED 90 7 34 6
DEL PEAK 24(10Q21.1) WILD-TYPE 292 55 112 7

Figure S225.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_10q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0433 (Wilcoxon-test), Q value = 0.15

Table S226.  Gene #48: 'del_10q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 24(10Q21.1) MUTATED 133 2.8 (6.0)
DEL PEAK 24(10Q21.1) WILD-TYPE 447 2.0 (4.2)

Figure S226.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'ETHNICITY'

P value = 0.0113 (Fisher's exact test), Q value = 0.059

Table S227.  Gene #48: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 5 352
DEL PEAK 24(10Q21.1) MUTATED 4 79
DEL PEAK 24(10Q21.1) WILD-TYPE 1 273

Figure S227.  Get High-res Image Gene #48: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

'del_10q23.31' versus 'YEARS_TO_BIRTH'

P value = 0.00336 (Wilcoxon-test), Q value = 0.024

Table S228.  Gene #49: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 25(10Q23.31) MUTATED 160 63.7 (12.8)
DEL PEAK 25(10Q23.31) WILD-TYPE 452 67.2 (12.7)

Figure S228.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'TUMOR_TISSUE_SITE'

P value = 0.0759 (Fisher's exact test), Q value = 0.22

Table S229.  Gene #49: 'del_10q23.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 25(10Q23.31) MUTATED 108 51
DEL PEAK 25(10Q23.31) WILD-TYPE 340 111

Figure S229.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10q23.31' versus 'PATHOLOGIC_STAGE'

P value = 0.0909 (Fisher's exact test), Q value = 0.24

Table S230.  Gene #49: 'del_10q23.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 25(10Q23.31) MUTATED 21 1 7 41 3 1 5 7 22 17 22 6 2
DEL PEAK 25(10Q23.31) WILD-TYPE 83 0 30 131 9 1 19 8 62 38 41 18 0

Figure S230.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_10q23.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.07 (Fisher's exact test), Q value = 0.21

Table S231.  Gene #49: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 25(10Q23.31) MUTATED 78 44 37
DEL PEAK 25(10Q23.31) WILD-TYPE 268 106 78

Figure S231.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_10q23.31' versus 'RADIATION_THERAPY'

P value = 0.0522 (Fisher's exact test), Q value = 0.17

Table S232.  Gene #49: 'del_10q23.31' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 25(10Q23.31) MUTATED 129 13
DEL PEAK 25(10Q23.31) WILD-TYPE 353 16

Figure S232.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_10q23.31' versus 'HISTOLOGICAL_TYPE'

P value = 0.0171 (Fisher's exact test), Q value = 0.079

Table S233.  Gene #49: 'del_10q23.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 25(10Q23.31) MUTATED 97 9 42 7
DEL PEAK 25(10Q23.31) WILD-TYPE 285 53 104 6

Figure S233.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_10q23.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0132 (Wilcoxon-test), Q value = 0.066

Table S234.  Gene #49: 'del_10q23.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 25(10Q23.31) MUTATED 153 2.5 (4.3)
DEL PEAK 25(10Q23.31) WILD-TYPE 427 2.1 (4.8)

Figure S234.  Get High-res Image Gene #49: 'del_10q23.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_10q25.2' versus 'YEARS_TO_BIRTH'

P value = 0.0382 (Wilcoxon-test), Q value = 0.13

Table S235.  Gene #50: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 26(10Q25.2) MUTATED 156 64.4 (12.8)
DEL PEAK 26(10Q25.2) WILD-TYPE 456 66.9 (12.7)

Figure S235.  Get High-res Image Gene #50: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q25.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0363 (Fisher's exact test), Q value = 0.13

Table S236.  Gene #50: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 26(10Q25.2) MUTATED 75 42 38
DEL PEAK 26(10Q25.2) WILD-TYPE 271 108 77

Figure S236.  Get High-res Image Gene #50: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_10q25.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0236 (Fisher's exact test), Q value = 0.099

Table S237.  Gene #50: 'del_10q25.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 26(10Q25.2) MUTATED 98 9 39 7
DEL PEAK 26(10Q25.2) WILD-TYPE 284 53 107 6

Figure S237.  Get High-res Image Gene #50: 'del_10q25.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_10q25.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0189 (Wilcoxon-test), Q value = 0.084

Table S238.  Gene #50: 'del_10q25.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 26(10Q25.2) MUTATED 150 2.6 (4.4)
DEL PEAK 26(10Q25.2) WILD-TYPE 430 2.1 (4.8)

Figure S238.  Get High-res Image Gene #50: 'del_10q25.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_11q22.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0692 (Fisher's exact test), Q value = 0.21

Table S239.  Gene #51: 'del_11q22.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 27(11Q22.3) MUTATED 70 36
DEL PEAK 27(11Q22.3) WILD-TYPE 378 126

Figure S239.  Get High-res Image Gene #51: 'del_11q22.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_11q22.3' versus 'RADIATION_THERAPY'

P value = 0.076 (Fisher's exact test), Q value = 0.22

Table S240.  Gene #51: 'del_11q22.3' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 27(11Q22.3) MUTATED 82 9
DEL PEAK 27(11Q22.3) WILD-TYPE 400 20

Figure S240.  Get High-res Image Gene #51: 'del_11q22.3' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_11q22.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0393 (Fisher's exact test), Q value = 0.14

Table S241.  Gene #51: 'del_11q22.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 27(11Q22.3) MUTATED 62 8 29 6
DEL PEAK 27(11Q22.3) WILD-TYPE 320 54 117 7

Figure S241.  Get High-res Image Gene #51: 'del_11q22.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_11q22.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0604 (Wilcoxon-test), Q value = 0.19

Table S242.  Gene #51: 'del_11q22.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 27(11Q22.3) MUTATED 106 3.1 (5.9)
DEL PEAK 27(11Q22.3) WILD-TYPE 474 2.0 (4.4)

Figure S242.  Get High-res Image Gene #51: 'del_11q22.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_12p13.1' versus 'Time to Death'

P value = 0.0703 (logrank test), Q value = 0.21

Table S243.  Gene #52: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 28(12P13.1) MUTATED 89 25 1.9 - 78.1 (24.1)
DEL PEAK 28(12P13.1) WILD-TYPE 505 103 0.0 - 148.0 (22.0)

Figure S243.  Get High-res Image Gene #52: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

'del_12p13.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0336 (Fisher's exact test), Q value = 0.12

Table S244.  Gene #52: 'del_12p13.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 28(12P13.1) MUTATED 42 32 18
DEL PEAK 28(12P13.1) WILD-TYPE 304 118 97

Figure S244.  Get High-res Image Gene #52: 'del_12p13.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_12p13.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0439 (Fisher's exact test), Q value = 0.15

Table S245.  Gene #52: 'del_12p13.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 28(12P13.1) MUTATED 58 19
DEL PEAK 28(12P13.1) WILD-TYPE 395 69

Figure S245.  Get High-res Image Gene #52: 'del_12p13.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_12p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0125 (Fisher's exact test), Q value = 0.064

Table S246.  Gene #52: 'del_12p13.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 28(12P13.1) MUTATED 57 2 28 1
DEL PEAK 28(12P13.1) WILD-TYPE 325 60 118 12

Figure S246.  Get High-res Image Gene #52: 'del_12p13.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_12q21.33' versus 'PATHOLOGIC_STAGE'

P value = 0.0876 (Fisher's exact test), Q value = 0.24

Table S247.  Gene #53: 'del_12q21.33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 29(12Q21.33) MUTATED 15 0 3 19 2 1 1 4 10 14 11 4 1
DEL PEAK 29(12Q21.33) WILD-TYPE 89 1 34 153 10 1 23 11 74 41 52 20 1

Figure S247.  Get High-res Image Gene #53: 'del_12q21.33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_12q21.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0208 (Fisher's exact test), Q value = 0.09

Table S248.  Gene #53: 'del_12q21.33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 29(12Q21.33) MUTATED 59 2 26 1
DEL PEAK 29(12Q21.33) WILD-TYPE 323 60 120 12

Figure S248.  Get High-res Image Gene #53: 'del_12q21.33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_12q21.33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0309 (Wilcoxon-test), Q value = 0.12

Table S249.  Gene #53: 'del_12q21.33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 29(12Q21.33) MUTATED 87 2.8 (4.9)
DEL PEAK 29(12Q21.33) WILD-TYPE 493 2.1 (4.7)

Figure S249.  Get High-res Image Gene #53: 'del_12q21.33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_14q11.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.0153 (Fisher's exact test), Q value = 0.074

Table S250.  Gene #54: 'del_14q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 30(14Q11.2) MUTATED 139 68
DEL PEAK 30(14Q11.2) WILD-TYPE 309 94

Figure S250.  Get High-res Image Gene #54: 'del_14q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_14q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0407 (Fisher's exact test), Q value = 0.14

Table S251.  Gene #54: 'del_14q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 30(14Q11.2) MUTATED 107 64 38
DEL PEAK 30(14Q11.2) WILD-TYPE 239 86 77

Figure S251.  Get High-res Image Gene #54: 'del_14q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_14q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S252.  Gene #54: 'del_14q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 30(14Q11.2) MUTATED 133 4 66 2
DEL PEAK 30(14Q11.2) WILD-TYPE 249 58 80 11

Figure S252.  Get High-res Image Gene #54: 'del_14q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_14q31.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0445 (Fisher's exact test), Q value = 0.15

Table S253.  Gene #55: 'del_14q31.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 31(14Q31.1) MUTATED 148 68
DEL PEAK 31(14Q31.1) WILD-TYPE 300 94

Figure S253.  Get High-res Image Gene #55: 'del_14q31.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_14q31.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0161 (Fisher's exact test), Q value = 0.075

Table S254.  Gene #55: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 31(14Q31.1) MUTATED 108 67 42
DEL PEAK 31(14Q31.1) WILD-TYPE 238 83 73

Figure S254.  Get High-res Image Gene #55: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_14q31.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0296 (Fisher's exact test), Q value = 0.12

Table S255.  Gene #55: 'del_14q31.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 31(14Q31.1) MUTATED 155 41
DEL PEAK 31(14Q31.1) WILD-TYPE 298 47

Figure S255.  Get High-res Image Gene #55: 'del_14q31.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_14q31.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S256.  Gene #55: 'del_14q31.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 31(14Q31.1) MUTATED 141 4 65 1
DEL PEAK 31(14Q31.1) WILD-TYPE 241 58 81 12

Figure S256.  Get High-res Image Gene #55: 'del_14q31.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_14q31.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0368 (Wilcoxon-test), Q value = 0.13

Table S257.  Gene #55: 'del_14q31.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 31(14Q31.1) MUTATED 205 2.5 (5.0)
DEL PEAK 31(14Q31.1) WILD-TYPE 375 2.1 (4.5)

Figure S257.  Get High-res Image Gene #55: 'del_14q31.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_15q11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0316 (Fisher's exact test), Q value = 0.12

Table S258.  Gene #56: 'del_15q11.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 32(15Q11.2) MUTATED 39 0 9 63 3 1 7 9 34 28 31 14 2
DEL PEAK 32(15Q11.2) WILD-TYPE 65 1 28 109 9 1 17 6 50 27 32 10 0

Figure S258.  Get High-res Image Gene #56: 'del_15q11.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_15q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0155 (Fisher's exact test), Q value = 0.074

Table S259.  Gene #56: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 32(15Q11.2) MUTATED 123 71 54
DEL PEAK 32(15Q11.2) WILD-TYPE 223 79 61

Figure S259.  Get High-res Image Gene #56: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_15q11.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0239 (Fisher's exact test), Q value = 0.099

Table S260.  Gene #56: 'del_15q11.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 32(15Q11.2) MUTATED 175 46
DEL PEAK 32(15Q11.2) WILD-TYPE 278 42

Figure S260.  Get High-res Image Gene #56: 'del_15q11.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_15q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0916 (Fisher's exact test), Q value = 0.24

Table S261.  Gene #56: 'del_15q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 32(15Q11.2) MUTATED 157 16 64 5
DEL PEAK 32(15Q11.2) WILD-TYPE 225 46 82 8

Figure S261.  Get High-res Image Gene #56: 'del_15q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_15q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00257 (Wilcoxon-test), Q value = 0.02

Table S262.  Gene #56: 'del_15q11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 32(15Q11.2) MUTATED 234 2.7 (4.8)
DEL PEAK 32(15Q11.2) WILD-TYPE 346 1.9 (4.6)

Figure S262.  Get High-res Image Gene #56: 'del_15q11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_15q15.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.0398 (Fisher's exact test), Q value = 0.14

Table S263.  Gene #57: 'del_15q15.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 33(15Q15.2) MUTATED 170 77
DEL PEAK 33(15Q15.2) WILD-TYPE 278 85

Figure S263.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_15q15.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0494 (Fisher's exact test), Q value = 0.16

Table S264.  Gene #57: 'del_15q15.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 33(15Q15.2) MUTATED 41 0 9 62 3 1 8 8 35 27 34 13 2
DEL PEAK 33(15Q15.2) WILD-TYPE 63 1 28 110 9 1 16 7 49 28 29 11 0

Figure S264.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_15q15.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00586 (Fisher's exact test), Q value = 0.037

Table S265.  Gene #57: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 33(15Q15.2) MUTATED 123 75 52
DEL PEAK 33(15Q15.2) WILD-TYPE 223 75 63

Figure S265.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_15q15.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00426 (Fisher's exact test), Q value = 0.03

Table S266.  Gene #57: 'del_15q15.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 33(15Q15.2) MUTATED 171 48
DEL PEAK 33(15Q15.2) WILD-TYPE 282 40

Figure S266.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_15q15.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0124 (Fisher's exact test), Q value = 0.064

Table S267.  Gene #57: 'del_15q15.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 33(15Q15.2) MUTATED 153 15 70 6
DEL PEAK 33(15Q15.2) WILD-TYPE 229 47 76 7

Figure S267.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_15q15.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00325 (Wilcoxon-test), Q value = 0.024

Table S268.  Gene #57: 'del_15q15.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 33(15Q15.2) MUTATED 236 2.7 (4.8)
DEL PEAK 33(15Q15.2) WILD-TYPE 344 1.9 (4.6)

Figure S268.  Get High-res Image Gene #57: 'del_15q15.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_15q21.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0313 (Fisher's exact test), Q value = 0.12

Table S269.  Gene #58: 'del_15q21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 34(15Q21.1) MUTATED 168 77
DEL PEAK 34(15Q21.1) WILD-TYPE 280 85

Figure S269.  Get High-res Image Gene #58: 'del_15q21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_15q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.024 (Fisher's exact test), Q value = 0.099

Table S270.  Gene #58: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 34(15Q21.1) MUTATED 124 72 51
DEL PEAK 34(15Q21.1) WILD-TYPE 222 78 64

Figure S270.  Get High-res Image Gene #58: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_15q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00626 (Fisher's exact test), Q value = 0.038

Table S271.  Gene #58: 'del_15q21.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 34(15Q21.1) MUTATED 170 47
DEL PEAK 34(15Q21.1) WILD-TYPE 283 41

Figure S271.  Get High-res Image Gene #58: 'del_15q21.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_15q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0123 (Fisher's exact test), Q value = 0.064

Table S272.  Gene #58: 'del_15q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 34(15Q21.1) MUTATED 151 15 70 6
DEL PEAK 34(15Q21.1) WILD-TYPE 231 47 76 7

Figure S272.  Get High-res Image Gene #58: 'del_15q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_15q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0111 (Wilcoxon-test), Q value = 0.058

Table S273.  Gene #58: 'del_15q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 34(15Q21.1) MUTATED 233 2.7 (4.9)
DEL PEAK 34(15Q21.1) WILD-TYPE 347 1.9 (4.6)

Figure S273.  Get High-res Image Gene #58: 'del_15q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_15q22.33' versus 'TUMOR_TISSUE_SITE'

P value = 0.0183 (Fisher's exact test), Q value = 0.083

Table S274.  Gene #59: 'del_15q22.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 35(15Q22.33) MUTATED 159 75
DEL PEAK 35(15Q22.33) WILD-TYPE 289 87

Figure S274.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_15q22.33' versus 'PATHOLOGIC_STAGE'

P value = 0.00978 (Fisher's exact test), Q value = 0.054

Table S275.  Gene #59: 'del_15q22.33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 35(15Q22.33) MUTATED 32 0 8 62 3 1 6 8 34 28 32 14 1
DEL PEAK 35(15Q22.33) WILD-TYPE 72 1 29 110 9 1 18 7 50 27 31 10 1

Figure S275.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_15q22.33' versus 'PATHOLOGY_T_STAGE'

P value = 0.0845 (Fisher's exact test), Q value = 0.23

Table S276.  Gene #59: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 20 105 417 69
DEL PEAK 35(15Q22.33) MUTATED 9 31 174 23
DEL PEAK 35(15Q22.33) WILD-TYPE 11 74 243 46

Figure S276.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

'del_15q22.33' versus 'PATHOLOGY_N_STAGE'

P value = 0.00288 (Fisher's exact test), Q value = 0.022

Table S277.  Gene #59: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 35(15Q22.33) MUTATED 114 69 54
DEL PEAK 35(15Q22.33) WILD-TYPE 232 81 61

Figure S277.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_15q22.33' versus 'PATHOLOGY_M_STAGE'

P value = 0.00393 (Fisher's exact test), Q value = 0.027

Table S278.  Gene #59: 'del_15q22.33' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 35(15Q22.33) MUTATED 161 46
DEL PEAK 35(15Q22.33) WILD-TYPE 292 42

Figure S278.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_15q22.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.00907 (Fisher's exact test), Q value = 0.052

Table S279.  Gene #59: 'del_15q22.33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 35(15Q22.33) MUTATED 143 14 68 6
DEL PEAK 35(15Q22.33) WILD-TYPE 239 48 78 7

Figure S279.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_15q22.33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00096 (Wilcoxon-test), Q value = 0.0093

Table S280.  Gene #59: 'del_15q22.33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 35(15Q22.33) MUTATED 224 2.8 (4.9)
DEL PEAK 35(15Q22.33) WILD-TYPE 356 1.9 (4.6)

Figure S280.  Get High-res Image Gene #59: 'del_15q22.33' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_16p13.3' versus 'Time to Death'

P value = 0.00968 (logrank test), Q value = 0.054

Table S281.  Gene #60: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 36(16P13.3) MUTATED 66 20 0.2 - 61.8 (19.5)
DEL PEAK 36(16P13.3) WILD-TYPE 528 108 0.0 - 148.0 (22.1)

Figure S281.  Get High-res Image Gene #60: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

'del_16p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.0332 (Fisher's exact test), Q value = 0.12

Table S282.  Gene #60: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 36(16P13.3) MUTATED 4 0 3 24 2 0 0 0 9 11 8 5 0
DEL PEAK 36(16P13.3) WILD-TYPE 100 1 34 148 10 2 24 15 75 44 55 19 2

Figure S282.  Get High-res Image Gene #60: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_16p13.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.0249 (Fisher's exact test), Q value = 0.1

Table S283.  Gene #60: 'del_16p13.3' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 20 105 417 69
DEL PEAK 36(16P13.3) MUTATED 0 5 56 7
DEL PEAK 36(16P13.3) WILD-TYPE 20 100 361 62

Figure S283.  Get High-res Image Gene #60: 'del_16p13.3' versus Clinical Feature #5: 'PATHOLOGY_T_STAGE'

'del_16q23.1' versus 'Time to Death'

P value = 0.0606 (logrank test), Q value = 0.19

Table S284.  Gene #61: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 37(16Q23.1) MUTATED 82 20 0.9 - 129.3 (19.5)
DEL PEAK 37(16Q23.1) WILD-TYPE 512 108 0.0 - 148.0 (23.0)

Figure S284.  Get High-res Image Gene #61: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

'del_17p12' versus 'TUMOR_TISSUE_SITE'

P value = 0.00272 (Fisher's exact test), Q value = 0.021

Table S285.  Gene #62: 'del_17p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 38(17P12) MUTATED 251 113
DEL PEAK 38(17P12) WILD-TYPE 197 49

Figure S285.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_17p12' versus 'PATHOLOGIC_STAGE'

P value = 0.00049 (Fisher's exact test), Q value = 0.0055

Table S286.  Gene #62: 'del_17p12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 38(17P12) MUTATED 53 0 20 87 4 1 15 12 54 42 46 18 2
DEL PEAK 38(17P12) WILD-TYPE 51 1 17 85 8 1 9 3 30 13 17 6 0

Figure S286.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_17p12' versus 'PATHOLOGY_N_STAGE'

P value = 6e-05 (Fisher's exact test), Q value = 0.001

Table S287.  Gene #62: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 38(17P12) MUTATED 180 103 83
DEL PEAK 38(17P12) WILD-TYPE 166 47 32

Figure S287.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_17p12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00274 (Fisher's exact test), Q value = 0.021

Table S288.  Gene #62: 'del_17p12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 38(17P12) MUTATED 261 66
DEL PEAK 38(17P12) WILD-TYPE 192 22

Figure S288.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_17p12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S289.  Gene #62: 'del_17p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 38(17P12) MUTATED 232 16 105 6
DEL PEAK 38(17P12) WILD-TYPE 150 46 41 7

Figure S289.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_17p12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 1.57e-05 (Wilcoxon-test), Q value = 0.00043

Table S290.  Gene #62: 'del_17p12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 38(17P12) MUTATED 348 2.7 (5.2)
DEL PEAK 38(17P12) WILD-TYPE 232 1.5 (3.8)

Figure S290.  Get High-res Image Gene #62: 'del_17p12' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_17q24.3' versus 'Time to Death'

P value = 0.0897 (logrank test), Q value = 0.24

Table S291.  Gene #63: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 39(17Q24.3) MUTATED 93 25 0.2 - 140.4 (24.0)
DEL PEAK 39(17Q24.3) WILD-TYPE 501 103 0.0 - 148.0 (22.0)

Figure S291.  Get High-res Image Gene #63: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

'del_17q24.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00228 (Fisher's exact test), Q value = 0.019

Table S292.  Gene #63: 'del_17q24.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 39(17Q24.3) MUTATED 15 0 5 15 0 0 4 4 11 16 12 9 1
DEL PEAK 39(17Q24.3) WILD-TYPE 89 1 32 157 12 2 20 11 73 39 51 15 1

Figure S292.  Get High-res Image Gene #63: 'del_17q24.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_17q24.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00131 (Fisher's exact test), Q value = 0.012

Table S293.  Gene #63: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 39(17Q24.3) MUTATED 38 30 27
DEL PEAK 39(17Q24.3) WILD-TYPE 308 120 88

Figure S293.  Get High-res Image Gene #63: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_17q24.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0142 (Fisher's exact test), Q value = 0.07

Table S294.  Gene #63: 'del_17q24.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 39(17Q24.3) MUTATED 60 21
DEL PEAK 39(17Q24.3) WILD-TYPE 393 67

Figure S294.  Get High-res Image Gene #63: 'del_17q24.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_17q24.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 7.75e-05 (Wilcoxon-test), Q value = 0.0012

Table S295.  Gene #63: 'del_17q24.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 39(17Q24.3) MUTATED 90 3.1 (4.5)
DEL PEAK 39(17Q24.3) WILD-TYPE 490 2.1 (4.7)

Figure S295.  Get High-res Image Gene #63: 'del_17q24.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_18p11.31' versus 'YEARS_TO_BIRTH'

P value = 0.0188 (Wilcoxon-test), Q value = 0.084

Table S296.  Gene #64: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 40(18P11.31) MUTATED 369 65.5 (12.1)
DEL PEAK 40(18P11.31) WILD-TYPE 243 67.4 (13.7)

Figure S296.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18p11.31' versus 'TUMOR_TISSUE_SITE'

P value = 2.63e-06 (Fisher's exact test), Q value = 0.00028

Table S297.  Gene #64: 'del_18p11.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 40(18P11.31) MUTATED 244 122
DEL PEAK 40(18P11.31) WILD-TYPE 204 40

Figure S297.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_18p11.31' versus 'PATHOLOGIC_STAGE'

P value = 8e-05 (Fisher's exact test), Q value = 0.0012

Table S298.  Gene #64: 'del_18p11.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 40(18P11.31) MUTATED 57 0 15 97 5 2 10 10 54 34 48 23 1
DEL PEAK 40(18P11.31) WILD-TYPE 47 1 22 75 7 0 14 5 30 21 15 1 1

Figure S298.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_18p11.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.00755 (Fisher's exact test), Q value = 0.045

Table S299.  Gene #64: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 40(18P11.31) MUTATED 190 104 73
DEL PEAK 40(18P11.31) WILD-TYPE 156 46 42

Figure S299.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_18p11.31' versus 'PATHOLOGY_M_STAGE'

P value = 7.54e-06 (Fisher's exact test), Q value = 0.00028

Table S300.  Gene #64: 'del_18p11.31' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 40(18P11.31) MUTATED 257 72
DEL PEAK 40(18P11.31) WILD-TYPE 196 16

Figure S300.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_18p11.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S301.  Gene #64: 'del_18p11.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 40(18P11.31) MUTATED 232 9 116 6
DEL PEAK 40(18P11.31) WILD-TYPE 150 53 30 7

Figure S301.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_18p11.31' versus 'RESIDUAL_TUMOR'

P value = 0.0499 (Fisher's exact test), Q value = 0.16

Table S302.  Gene #64: 'del_18p11.31' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 40(18P11.31) MUTATED 264 3 29 14
DEL PEAK 40(18P11.31) WILD-TYPE 182 3 8 15

Figure S302.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_18p11.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0178 (Wilcoxon-test), Q value = 0.081

Table S303.  Gene #64: 'del_18p11.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 40(18P11.31) MUTATED 347 2.3 (4.2)
DEL PEAK 40(18P11.31) WILD-TYPE 233 2.1 (5.3)

Figure S303.  Get High-res Image Gene #64: 'del_18p11.31' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_18q12.2' versus 'YEARS_TO_BIRTH'

P value = 0.0311 (Wilcoxon-test), Q value = 0.12

Table S304.  Gene #65: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 41(18Q12.2) MUTATED 414 65.6 (12.2)
DEL PEAK 41(18Q12.2) WILD-TYPE 198 67.5 (13.9)

Figure S304.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q12.2' versus 'TUMOR_TISSUE_SITE'

P value = 1.49e-09 (Fisher's exact test), Q value = 1.4e-06

Table S305.  Gene #65: 'del_18q12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 41(18Q12.2) MUTATED 272 139
DEL PEAK 41(18Q12.2) WILD-TYPE 176 23

Figure S305.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_18q12.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00041 (Fisher's exact test), Q value = 0.0049

Table S306.  Gene #65: 'del_18q12.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 41(18Q12.2) MUTATED 60 0 22 105 5 2 14 13 61 40 53 21 1
DEL PEAK 41(18Q12.2) WILD-TYPE 44 1 15 67 7 0 10 2 23 15 10 3 1

Figure S306.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_18q12.2' versus 'PATHOLOGY_N_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 0.0011

Table S307.  Gene #65: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 41(18Q12.2) MUTATED 208 116 87
DEL PEAK 41(18Q12.2) WILD-TYPE 138 34 28

Figure S307.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_18q12.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.000406 (Fisher's exact test), Q value = 0.0049

Table S308.  Gene #65: 'del_18q12.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 41(18Q12.2) MUTATED 295 74
DEL PEAK 41(18Q12.2) WILD-TYPE 158 14

Figure S308.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_18q12.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S309.  Gene #65: 'del_18q12.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 41(18Q12.2) MUTATED 255 14 128 10
DEL PEAK 41(18Q12.2) WILD-TYPE 127 48 18 3

Figure S309.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_18q12.2' versus 'RESIDUAL_TUMOR'

P value = 0.0779 (Fisher's exact test), Q value = 0.22

Table S310.  Gene #65: 'del_18q12.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 41(18Q12.2) MUTATED 297 4 29 14
DEL PEAK 41(18Q12.2) WILD-TYPE 149 2 8 15

Figure S310.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_18q12.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000511 (Wilcoxon-test), Q value = 0.0056

Table S311.  Gene #65: 'del_18q12.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 41(18Q12.2) MUTATED 392 2.5 (5.0)
DEL PEAK 41(18Q12.2) WILD-TYPE 188 1.6 (4.0)

Figure S311.  Get High-res Image Gene #65: 'del_18q12.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_18q21.2' versus 'YEARS_TO_BIRTH'

P value = 0.0457 (Wilcoxon-test), Q value = 0.15

Table S312.  Gene #66: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 612 66.3 (12.8)
DEL PEAK 42(18Q21.2) MUTATED 431 65.7 (12.2)
DEL PEAK 42(18Q21.2) WILD-TYPE 181 67.6 (14.1)

Figure S312.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q21.2' versus 'TUMOR_TISSUE_SITE'

P value = 3.7e-09 (Fisher's exact test), Q value = 1.7e-06

Table S313.  Gene #66: 'del_18q21.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 42(18Q21.2) MUTATED 286 142
DEL PEAK 42(18Q21.2) WILD-TYPE 162 20

Figure S313.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_18q21.2' versus 'PATHOLOGIC_STAGE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00048

Table S314.  Gene #66: 'del_18q21.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 42(18Q21.2) MUTATED 62 0 24 107 5 2 15 13 64 43 56 22 2
DEL PEAK 42(18Q21.2) WILD-TYPE 42 1 13 65 7 0 9 2 20 12 7 2 0

Figure S314.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_18q21.2' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S315.  Gene #66: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 42(18Q21.2) MUTATED 214 120 94
DEL PEAK 42(18Q21.2) WILD-TYPE 132 30 21

Figure S315.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_18q21.2' versus 'PATHOLOGY_M_STAGE'

P value = 9.02e-06 (Fisher's exact test), Q value = 0.00028

Table S316.  Gene #66: 'del_18q21.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 42(18Q21.2) MUTATED 305 79
DEL PEAK 42(18Q21.2) WILD-TYPE 148 9

Figure S316.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_18q21.2' versus 'GENDER'

P value = 0.0634 (Fisher's exact test), Q value = 0.2

Table S317.  Gene #66: 'del_18q21.2' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 42(18Q21.2) MUTATED 192 239
DEL PEAK 42(18Q21.2) WILD-TYPE 97 86

Figure S317.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #8: 'GENDER'

'del_18q21.2' versus 'RADIATION_THERAPY'

P value = 0.0604 (Fisher's exact test), Q value = 0.19

Table S318.  Gene #66: 'del_18q21.2' versus Clinical Feature #9: 'RADIATION_THERAPY'

nPatients NO YES
ALL 482 29
DEL PEAK 42(18Q21.2) MUTATED 335 25
DEL PEAK 42(18Q21.2) WILD-TYPE 147 4

Figure S318.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #9: 'RADIATION_THERAPY'

'del_18q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S319.  Gene #66: 'del_18q21.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 42(18Q21.2) MUTATED 267 16 129 11
DEL PEAK 42(18Q21.2) WILD-TYPE 115 46 17 2

Figure S319.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_18q21.2' versus 'RESIDUAL_TUMOR'

P value = 0.0794 (Fisher's exact test), Q value = 0.22

Table S320.  Gene #66: 'del_18q21.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

nPatients R0 R1 R2 RX
ALL 446 6 37 29
DEL PEAK 42(18Q21.2) MUTATED 307 4 30 15
DEL PEAK 42(18Q21.2) WILD-TYPE 139 2 7 14

Figure S320.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #11: 'RESIDUAL_TUMOR'

'del_18q21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.88e-06 (Wilcoxon-test), Q value = 0.00028

Table S321.  Gene #66: 'del_18q21.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 42(18Q21.2) MUTATED 408 2.5 (5.0)
DEL PEAK 42(18Q21.2) WILD-TYPE 172 1.5 (3.9)

Figure S321.  Get High-res Image Gene #66: 'del_18q21.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_18q22.1' versus 'TUMOR_TISSUE_SITE'

P value = 1.72e-07 (Fisher's exact test), Q value = 4e-05

Table S322.  Gene #67: 'del_18q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 43(18Q22.1) MUTATED 285 138
DEL PEAK 43(18Q22.1) WILD-TYPE 163 24

Figure S322.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_18q22.1' versus 'PATHOLOGIC_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00065

Table S323.  Gene #67: 'del_18q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 43(18Q22.1) MUTATED 62 0 24 107 5 2 13 13 62 43 55 22 2
DEL PEAK 43(18Q22.1) WILD-TYPE 42 1 13 65 7 0 11 2 22 12 8 2 0

Figure S323.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_18q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 8e-04

Table S324.  Gene #67: 'del_18q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 43(18Q22.1) MUTATED 214 116 93
DEL PEAK 43(18Q22.1) WILD-TYPE 132 34 22

Figure S324.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_18q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 1.94e-05 (Fisher's exact test), Q value = 0.00048

Table S325.  Gene #67: 'del_18q22.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 43(18Q22.1) MUTATED 302 78
DEL PEAK 43(18Q22.1) WILD-TYPE 151 10

Figure S325.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_18q22.1' versus 'GENDER'

P value = 0.0663 (Fisher's exact test), Q value = 0.2

Table S326.  Gene #67: 'del_18q22.1' versus Clinical Feature #8: 'GENDER'

nPatients FEMALE MALE
ALL 289 325
DEL PEAK 43(18Q22.1) MUTATED 190 236
DEL PEAK 43(18Q22.1) WILD-TYPE 99 89

Figure S326.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #8: 'GENDER'

'del_18q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00028

Table S327.  Gene #67: 'del_18q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 43(18Q22.1) MUTATED 267 15 127 10
DEL PEAK 43(18Q22.1) WILD-TYPE 115 47 19 3

Figure S327.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_18q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 3.62e-05 (Wilcoxon-test), Q value = 0.00077

Table S328.  Gene #67: 'del_18q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 43(18Q22.1) MUTATED 404 2.5 (5.0)
DEL PEAK 43(18Q22.1) WILD-TYPE 176 1.5 (3.9)

Figure S328.  Get High-res Image Gene #67: 'del_18q22.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_19p13.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0773 (Fisher's exact test), Q value = 0.22

Table S329.  Gene #68: 'del_19p13.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 44(19P13.3) MUTATED 63 33
DEL PEAK 44(19P13.3) WILD-TYPE 385 129

Figure S329.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_19p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00294 (Fisher's exact test), Q value = 0.022

Table S330.  Gene #68: 'del_19p13.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 44(19P13.3) MUTATED 11 0 4 18 1 0 6 3 9 16 15 8 1
DEL PEAK 44(19P13.3) WILD-TYPE 93 1 33 154 11 2 18 12 75 39 48 16 1

Figure S330.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_19p13.3' versus 'PATHOLOGY_N_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 8e-04

Table S331.  Gene #68: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 44(19P13.3) MUTATED 36 28 32
DEL PEAK 44(19P13.3) WILD-TYPE 310 122 83

Figure S331.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_19p13.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.00705 (Fisher's exact test), Q value = 0.042

Table S332.  Gene #68: 'del_19p13.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 44(19P13.3) MUTATED 64 23
DEL PEAK 44(19P13.3) WILD-TYPE 389 65

Figure S332.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_19p13.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0809 (Fisher's exact test), Q value = 0.23

Table S333.  Gene #68: 'del_19p13.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 44(19P13.3) MUTATED 57 5 31 1
DEL PEAK 44(19P13.3) WILD-TYPE 325 57 115 12

Figure S333.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_19p13.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 7.28e-06 (Wilcoxon-test), Q value = 0.00028

Table S334.  Gene #68: 'del_19p13.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 44(19P13.3) MUTATED 91 3.8 (5.9)
DEL PEAK 44(19P13.3) WILD-TYPE 489 1.9 (4.4)

Figure S334.  Get High-res Image Gene #68: 'del_19p13.3' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_20p12.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.00774 (Fisher's exact test), Q value = 0.046

Table S335.  Gene #69: 'del_20p12.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 45(20P12.1) MUTATED 86 48
DEL PEAK 45(20P12.1) WILD-TYPE 362 114

Figure S335.  Get High-res Image Gene #69: 'del_20p12.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0015 (Fisher's exact test), Q value = 0.013

Table S336.  Gene #69: 'del_20p12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 45(20P12.1) MUTATED 79 5 43 5
DEL PEAK 45(20P12.1) WILD-TYPE 303 57 103 8

Figure S336.  Get High-res Image Gene #69: 'del_20p12.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_20p12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0823 (Wilcoxon-test), Q value = 0.23

Table S337.  Gene #69: 'del_20p12.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 45(20P12.1) MUTATED 129 2.7 (5.1)
DEL PEAK 45(20P12.1) WILD-TYPE 451 2.1 (4.6)

Figure S337.  Get High-res Image Gene #69: 'del_20p12.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_21q11.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.00381 (Fisher's exact test), Q value = 0.027

Table S338.  Gene #70: 'del_21q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 46(21Q11.2) MUTATED 139 71
DEL PEAK 46(21Q11.2) WILD-TYPE 309 91

Figure S338.  Get High-res Image Gene #70: 'del_21q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_21q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0898 (Fisher's exact test), Q value = 0.24

Table S339.  Gene #70: 'del_21q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 46(21Q11.2) MUTATED 108 56 48
DEL PEAK 46(21Q11.2) WILD-TYPE 238 94 67

Figure S339.  Get High-res Image Gene #70: 'del_21q11.2' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_21q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 6e-05 (Fisher's exact test), Q value = 0.001

Table S340.  Gene #70: 'del_21q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 46(21Q11.2) MUTATED 129 8 66 3
DEL PEAK 46(21Q11.2) WILD-TYPE 253 54 80 10

Figure S340.  Get High-res Image Gene #70: 'del_21q11.2' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.033 (Wilcoxon-test), Q value = 0.12

Table S341.  Gene #70: 'del_21q11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 46(21Q11.2) MUTATED 203 3.0 (6.2)
DEL PEAK 46(21Q11.2) WILD-TYPE 377 1.8 (3.6)

Figure S341.  Get High-res Image Gene #70: 'del_21q11.2' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_21q11.2' versus 'ETHNICITY'

P value = 0.0544 (Fisher's exact test), Q value = 0.17

Table S342.  Gene #70: 'del_21q11.2' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 5 352
DEL PEAK 46(21Q11.2) MUTATED 4 122
DEL PEAK 46(21Q11.2) WILD-TYPE 1 230

Figure S342.  Get High-res Image Gene #70: 'del_21q11.2' versus Clinical Feature #13: 'ETHNICITY'

'del_21q21.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.00272 (Fisher's exact test), Q value = 0.021

Table S343.  Gene #71: 'del_21q21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients COLON RECTUM
ALL 448 162
DEL PEAK 47(21Q21.1) MUTATED 137 71
DEL PEAK 47(21Q21.1) WILD-TYPE 311 91

Figure S343.  Get High-res Image Gene #71: 'del_21q21.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_21q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0203 (Fisher's exact test), Q value = 0.089

Table S344.  Gene #71: 'del_21q21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 47(21Q21.1) MUTATED 103 55 50
DEL PEAK 47(21Q21.1) WILD-TYPE 243 95 65

Figure S344.  Get High-res Image Gene #71: 'del_21q21.1' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_21q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 6e-05 (Fisher's exact test), Q value = 0.001

Table S345.  Gene #71: 'del_21q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 47(21Q21.1) MUTATED 128 8 66 3
DEL PEAK 47(21Q21.1) WILD-TYPE 254 54 80 10

Figure S345.  Get High-res Image Gene #71: 'del_21q21.1' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_21q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00564 (Wilcoxon-test), Q value = 0.036

Table S346.  Gene #71: 'del_21q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 47(21Q21.1) MUTATED 200 3.1 (6.5)
DEL PEAK 47(21Q21.1) WILD-TYPE 380 1.7 (3.3)

Figure S346.  Get High-res Image Gene #71: 'del_21q21.1' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

'del_21q21.1' versus 'ETHNICITY'

P value = 0.0528 (Fisher's exact test), Q value = 0.17

Table S347.  Gene #71: 'del_21q21.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 5 352
DEL PEAK 47(21Q21.1) MUTATED 4 121
DEL PEAK 47(21Q21.1) WILD-TYPE 1 231

Figure S347.  Get High-res Image Gene #71: 'del_21q21.1' versus Clinical Feature #13: 'ETHNICITY'

'del_22q13.32' versus 'Time to Death'

P value = 0.0831 (logrank test), Q value = 0.23

Table S348.  Gene #72: 'del_22q13.32' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 594 128 0.0 - 148.0 (22.0)
DEL PEAK 48(22Q13.32) MUTATED 218 52 0.2 - 140.4 (22.0)
DEL PEAK 48(22Q13.32) WILD-TYPE 376 76 0.0 - 148.0 (22.0)

Figure S348.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #1: 'Time to Death'

'del_22q13.32' versus 'PATHOLOGIC_STAGE'

P value = 0.00266 (Fisher's exact test), Q value = 0.021

Table S349.  Gene #72: 'del_22q13.32' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
ALL 104 1 37 172 12 2 24 15 84 55 63 24 2
DEL PEAK 48(22Q13.32) MUTATED 29 0 10 57 1 0 8 10 31 25 34 11 0
DEL PEAK 48(22Q13.32) WILD-TYPE 75 1 27 115 11 2 16 5 53 30 29 13 2

Figure S349.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #4: 'PATHOLOGIC_STAGE'

'del_22q13.32' versus 'PATHOLOGY_N_STAGE'

P value = 0.00019 (Fisher's exact test), Q value = 0.0027

Table S350.  Gene #72: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 346 150 115
DEL PEAK 48(22Q13.32) MUTATED 102 71 51
DEL PEAK 48(22Q13.32) WILD-TYPE 244 79 64

Figure S350.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_N_STAGE'

'del_22q13.32' versus 'PATHOLOGY_M_STAGE'

P value = 0.00517 (Fisher's exact test), Q value = 0.034

Table S351.  Gene #72: 'del_22q13.32' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 453 88
DEL PEAK 48(22Q13.32) MUTATED 153 44
DEL PEAK 48(22Q13.32) WILD-TYPE 300 44

Figure S351.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #7: 'PATHOLOGY_M_STAGE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 0.00543 (Fisher's exact test), Q value = 0.035

Table S352.  Gene #72: 'del_22q13.32' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

nPatients COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
ALL 382 62 146 13
DEL PEAK 48(22Q13.32) MUTATED 146 11 61 4
DEL PEAK 48(22Q13.32) WILD-TYPE 236 51 85 9

Figure S352.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #10: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000302 (Wilcoxon-test), Q value = 0.0039

Table S353.  Gene #72: 'del_22q13.32' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 580 2.2 (4.7)
DEL PEAK 48(22Q13.32) MUTATED 214 2.9 (5.1)
DEL PEAK 48(22Q13.32) WILD-TYPE 366 1.8 (4.4)

Figure S353.  Get High-res Image Gene #72: 'del_22q13.32' versus Clinical Feature #12: 'NUMBER_OF_LYMPH_NODES'

Methods & Data
Input

  • Copy number data file = all_lesions.txt from GISTIC pipeline

  • Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COADREAD-TP/22524544/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/COADREAD-TP/22506534/COADREAD-TP.merged_data.txt

  • Number of patients = 614

  • Number of significantly focal cnvs = 72

  • Number of selected clinical features = 13

  • Exclude genes that fewer than K tumors have mutations, K = 3

Survival analysis

For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' 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

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References
[1] Bland and Altman, Statistics notes: The logrank test, BMJ 328(7447):1073 (2004)
[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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