Correlation between copy number variation genes (focal events) and selected clinical features

Colon Adenocarcinoma (Primary solid tumor)

02 April 2015 | analyses__2015_04_02

Maintainer Information

Citation Information

Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)

Cite as Broad Institute TCGA Genome Data Analysis Center (2015): Correlation between copy number variation genes (focal events) and selected clinical features. Broad Institute of MIT and Harvard. doi:10.7908/C19K4973

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 69 focal events and 12 clinical features across 443 patients, 269 significant findings detected with Q value < 0.25.

amp_2q33.1 cnv correlated to 'Time to Death', 'PATHOLOGY_N_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
amp_5p13.2 cnv correlated to 'PATHOLOGY_N_STAGE' and 'NUMBER_OF_LYMPH_NODES'.
amp_5q22.3 cnv correlated to 'PATHOLOGY_M_STAGE'.
amp_6p21.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
amp_7p21.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_8q12.1 cnv correlated to 'YEARS_TO_BIRTH' and 'HISTOLOGICAL_TYPE'.
amp_8q24.21 cnv correlated to 'YEARS_TO_BIRTH' and 'PATHOLOGY_M_STAGE'.
amp_11p15.5 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_13q12.13 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
amp_13q22.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
amp_16p11.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_16q12.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_17q12 cnv correlated to 'PATHOLOGY_M_STAGE'.
amp_17q24.1 cnv correlated to 'Time to Death'.
amp_19p13.2 cnv correlated to 'PATHOLOGY_N_STAGE'.
amp_20p12.1 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'COMPLETENESS_OF_RESECTION'.
amp_20p11.21 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'COMPLETENESS_OF_RESECTION'.
amp_20q11.21 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_20q12 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_20q13.12 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_1p36.11 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'NUMBER_OF_LYMPH_NODES', and 'RACE'.
del_1p33 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_1p13.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_1q43 cnv correlated to 'NEOPLASM_DISEASESTAGE'.
del_2q22.1 cnv correlated to 'NUMBER_OF_LYMPH_NODES' and 'RACE'.
del_3p26.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_3p14.2 cnv correlated to 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_4p16.2 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
del_4q22.1 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_4q35.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_5q12.1 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_5q21.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_5q22.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_6p25.3 cnv correlated to 'YEARS_TO_BIRTH', 'GENDER', and 'RACE'.
del_6q26 cnv correlated to 'Time to Death', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'NUMBER_OF_LYMPH_NODES', and 'RACE'.
del_8p23.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_8p22 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
del_8q11.1 cnv correlated to 'RACE'.
del_9p21.3 cnv correlated to 'YEARS_TO_BIRTH' and 'HISTOLOGICAL_TYPE'.
del_10p15.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_10q21.1 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
del_10q23.31 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_10q25.2 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
del_12p13.2 cnv correlated to 'Time to Death', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_13q14.13 cnv correlated to 'PATHOLOGY_N_STAGE' and 'RACE'.
del_14q31.1 cnv correlated to 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_15q11.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_15q15.2 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_15q21.1 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_15q22.33 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RADIATIONS_RADIATION_REGIMENINDICATION', and 'NUMBER_OF_LYMPH_NODES'.
del_16p13.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_T_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_16q23.1 cnv correlated to 'Time to Death'.
del_17p12 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_17q24.3 cnv correlated to 'Time to Death', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_18p11.31 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'COMPLETENESS_OF_RESECTION', and 'NUMBER_OF_LYMPH_NODES'.
del_18q12.2 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_18q21.2 cnv correlated to 'YEARS_TO_BIRTH', 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_19p13.3 cnv correlated to 'NEOPLASM_DISEASESTAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_20p12.1 cnv correlated to 'HISTOLOGICAL_TYPE'.
del_21q11.2 cnv correlated to 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_22q13.32 cnv correlated to 'NEOPLASM_DISEASESTAGE', '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 69 focal events and 12 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 269 significant findings detected.


		Clinical Features	Time to Death	YEARS TO BIRTH	NEOPLASM DISEASESTAGE	PATHOLOGY T STAGE	PATHOLOGY N STAGE	PATHOLOGY M STAGE	GENDER	HISTOLOGICAL TYPE	RADIATIONS RADIATION REGIMENINDICATION	COMPLETENESS OF RESECTION	NUMBER OF LYMPH NODES	RACE
	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	Wilcoxon-test	Fisher's exact test
del 8p22	199 (45%)	244	0.162 (0.379)	0.0318 (0.127)	1e-05 (0.000517)	0.053 (0.181)	1e-05 (0.000517)	2.17e-05 (0.000918)	0.0558 (0.188)	0.00758 (0.0468)	0.59 (0.8)	0.0403 (0.15)	7.4e-07 (8.4e-05)	0.383 (0.637)
del 1p36 11	164 (37%)	279	0.0457 (0.163)	0.071 (0.227)	0.00068 (0.00908)	0.703 (0.857)	0.00889 (0.0515)	1.35e-05 (0.000659)	0.14 (0.348)	0.00138 (0.0147)	1 (1.00)	0.0907 (0.267)	0.00256 (0.0241)	0.0748 (0.235)
del 4p16 2	133 (30%)	310	0.0134 (0.0682)	0.905 (0.983)	0.00084 (0.0106)	0.418 (0.668)	0.00021 (0.00424)	2.63e-05 (0.00104)	0.535 (0.768)	0.0346 (0.133)	0.0266 (0.114)	0.034 (0.133)	8.63e-05 (0.00224)	0.469 (0.71)
del 4q22 1	145 (33%)	298	0.028 (0.118)	0.351 (0.614)	0.00272 (0.0247)	0.16 (0.377)	0.00013 (0.00283)	0.017 (0.0817)	0.362 (0.624)	0.0115 (0.0617)	0.0346 (0.133)	0.913 (0.99)	7.86e-05 (0.00221)	0.688 (0.855)
del 5q12 1	103 (23%)	340	0.113 (0.312)	0.0667 (0.215)	0.00792 (0.0479)	0.839 (0.95)	0.00926 (0.0523)	0.0294 (0.122)	0.311 (0.571)	0.0498 (0.174)	0.0123 (0.0648)	0.73 (0.879)	0.00339 (0.0281)	0.417 (0.668)
del 10q21 1	94 (21%)	349	0.619 (0.817)	0.0421 (0.153)	0.00581 (0.0408)	0.966 (1.00)	0.00979 (0.054)	0.00646 (0.042)	1 (1.00)	0.061 (0.2)	0.115 (0.315)	0.0661 (0.215)	0.00401 (0.0316)	0.646 (0.828)
del 18p11 31	241 (54%)	202	0.564 (0.784)	0.0064 (0.042)	0.00132 (0.0144)	0.877 (0.969)	0.0223 (0.102)	2.22e-05 (0.000918)	0.703 (0.857)	1.74e-10 (1.44e-07)	0.254 (0.52)	0.026 (0.112)	0.0255 (0.11)	0.937 (1.00)
del 18q21 2	282 (64%)	161	0.736 (0.884)	0.0349 (0.133)	6e-05 (0.00184)	0.803 (0.928)	4e-05 (0.00138)	3.53e-05 (0.00133)	0.0606 (0.199)	3.88e-09 (1.07e-06)	0.557 (0.784)	0.0851 (0.257)	4.33e-05 (0.00138)	0.813 (0.934)
amp 13q12 13	270 (61%)	173	0.876 (0.969)	0.551 (0.784)	9e-05 (0.00226)	0.901 (0.982)	0.00068 (0.00908)	0.00058 (0.00815)	0.77 (0.909)	2.76e-07 (4.58e-05)	0.284 (0.545)	0.0222 (0.102)	0.00251 (0.024)	0.137 (0.345)
amp 13q22 1	274 (62%)	169	0.741 (0.888)	0.608 (0.811)	0.00011 (0.00268)	0.895 (0.978)	0.00039 (0.00687)	0.00252 (0.024)	0.281 (0.545)	1.58e-06 (0.000131)	0.291 (0.549)	0.046 (0.163)	0.00299 (0.0263)	0.117 (0.317)
del 1p33	120 (27%)	323	0.00278 (0.0251)	0.911 (0.988)	0.0155 (0.0761)	0.304 (0.565)	0.0155 (0.0761)	0.00473 (0.0356)	0.454 (0.697)	0.0602 (0.199)	0.566 (0.784)	0.246 (0.51)	0.005 (0.0363)	0.372 (0.628)
del 8p23 3	185 (42%)	258	0.626 (0.82)	0.135 (0.343)	0.00112 (0.0125)	0.141 (0.349)	8e-05 (0.00221)	0.000438 (0.00712)	0.0159 (0.0772)	0.0246 (0.108)	0.574 (0.789)	0.0892 (0.265)	4.19e-05 (0.00138)	0.366 (0.624)
del 10q25 2	106 (24%)	337	0.104 (0.291)	0.0663 (0.215)	0.0295 (0.122)	0.38 (0.635)	0.00774 (0.0475)	0.00986 (0.0541)	1 (1.00)	0.103 (0.29)	0.144 (0.352)	0.0751 (0.235)	0.00383 (0.0305)	1 (1.00)
del 15q11 2	173 (39%)	270	0.65 (0.832)	0.484 (0.724)	0.01 (0.0541)	0.961 (1.00)	0.00873 (0.0509)	0.00422 (0.0324)	0.698 (0.855)	0.0456 (0.163)	0.0589 (0.196)	0.438 (0.686)	0.00493 (0.0361)	0.306 (0.565)
del 15q15 2	168 (38%)	275	0.481 (0.72)	0.159 (0.375)	0.0138 (0.0699)	0.954 (1.00)	0.00649 (0.042)	0.000501 (0.0076)	0.769 (0.909)	0.0317 (0.127)	0.0539 (0.183)	0.284 (0.545)	0.00929 (0.0523)	0.254 (0.52)
del 15q21 1	165 (37%)	278	0.32 (0.578)	0.458 (0.7)	0.0692 (0.222)	0.971 (1.00)	0.0336 (0.133)	0.000847 (0.0106)	0.556 (0.784)	0.0437 (0.158)	0.0511 (0.175)	0.176 (0.408)	0.0349 (0.133)	0.139 (0.347)
del 15q22 33	157 (35%)	286	0.695 (0.855)	0.305 (0.565)	0.00679 (0.0432)	0.585 (0.795)	0.00725 (0.0451)	0.000456 (0.00727)	0.691 (0.855)	0.0421 (0.153)	0.044 (0.158)	0.417 (0.668)	0.00617 (0.0415)	0.183 (0.419)
del 17p12	248 (56%)	195	0.506 (0.744)	0.0174 (0.0832)	2e-05 (0.000918)	0.88 (0.972)	1e-05 (0.000517)	0.00025 (0.00482)	0.214 (0.472)	5.14e-06 (0.000327)	0.259 (0.524)	0.132 (0.336)	8.59e-07 (8.4e-05)	0.806 (0.929)
del 18q12 2	268 (60%)	175	0.682 (0.853)	0.0177 (0.0844)	0.00056 (0.00799)	0.802 (0.928)	0.00087 (0.0108)	0.000911 (0.0111)	0.175 (0.406)	3.04e-09 (1.07e-06)	0.281 (0.545)	0.102 (0.289)	0.00158 (0.0162)	0.883 (0.972)
amp 7p21 2	251 (57%)	192	0.788 (0.917)	0.0912 (0.267)	0.00012 (0.00269)	0.393 (0.648)	7e-05 (0.00207)	0.0116 (0.0618)	0.924 (0.997)	0.0348 (0.133)	0.262 (0.527)	0.261 (0.527)	0.000235 (0.00464)	0.533 (0.768)
amp 20p12 1	206 (47%)	237	0.0723 (0.23)	0.895 (0.978)	0.00113 (0.0125)	0.734 (0.882)	0.303 (0.565)	0.000752 (0.00988)	0.216 (0.472)	0.0364 (0.137)	0.0998 (0.287)	0.0249 (0.109)	0.268 (0.533)	0.401 (0.654)
amp 20q11 21	317 (72%)	126	0.984 (1.00)	0.429 (0.679)	0.0025 (0.024)	0.289 (0.549)	0.00623 (0.0416)	0.00316 (0.0267)	0.292 (0.551)	9.13e-07 (8.4e-05)	0.561 (0.784)	0.089 (0.265)	0.0127 (0.0664)	0.783 (0.914)
amp 20q12	318 (72%)	125	0.854 (0.96)	0.431 (0.68)	0.00099 (0.0119)	0.394 (0.648)	0.00846 (0.05)	0.00105 (0.0122)	0.245 (0.51)	1.52e-07 (3.14e-05)	0.562 (0.784)	0.0901 (0.266)	0.0133 (0.0682)	0.686 (0.855)
amp 20q13 12	320 (72%)	123	0.875 (0.969)	0.528 (0.764)	0.00041 (0.00693)	0.564 (0.784)	0.00414 (0.032)	0.000505 (0.0076)	0.243 (0.51)	6.1e-07 (8.4e-05)	0.564 (0.784)	0.0914 (0.267)	0.00405 (0.0316)	0.604 (0.81)
del 3p26 2	69 (16%)	374	0.137 (0.345)	0.449 (0.694)	0.0568 (0.19)	0.141 (0.349)	0.00952 (0.0529)	0.00347 (0.0285)	0.896 (0.978)	0.0367 (0.137)	1 (1.00)	0.34 (0.6)	0.00616 (0.0415)	0.825 (0.944)
del 4q35 1	153 (35%)	290	0.545 (0.779)	0.0819 (0.251)	0.0499 (0.174)	0.317 (0.575)	0.00111 (0.0125)	0.00857 (0.0503)	0.317 (0.575)	0.109 (0.303)	0.0407 (0.15)	0.381 (0.635)	0.000314 (0.00577)	0.241 (0.507)
del 5q21 1	124 (28%)	319	0.181 (0.417)	0.115 (0.315)	0.0004 (0.0069)	0.996 (1.00)	0.00109 (0.0125)	0.00812 (0.0486)	0.341 (0.6)	0.442 (0.689)	0.0215 (0.0997)	0.458 (0.7)	0.000264 (0.00496)	0.44 (0.687)
del 5q22 2	127 (29%)	316	0.152 (0.365)	0.188 (0.427)	0.024 (0.107)	1 (1.00)	0.0285 (0.119)	0.00312 (0.0267)	0.141 (0.349)	0.125 (0.33)	0.0232 (0.105)	0.126 (0.33)	0.0117 (0.0619)	0.362 (0.624)
del 6q26	61 (14%)	382	0.0185 (0.0876)	0.896 (0.978)	0.116 (0.315)	0.429 (0.679)	0.00285 (0.0254)	0.0245 (0.108)	0.679 (0.851)	1 (1.00)	1 (1.00)	0.15 (0.362)	0.00105 (0.0122)	0.053 (0.181)
del 10p15 3	77 (17%)	366	0.771 (0.909)	0.438 (0.686)	0.0014 (0.0147)	0.93 (1.00)	0.00927 (0.0523)	0.000814 (0.0105)	0.802 (0.928)	0.465 (0.706)	0.0795 (0.246)	0.656 (0.834)	0.0026 (0.0242)	0.509 (0.744)
del 10q23 31	106 (24%)	337	0.875 (0.969)	0.00371 (0.0299)	0.00316 (0.0267)	0.887 (0.976)	0.0263 (0.113)	0.00944 (0.0528)	0.578 (0.789)	0.103 (0.29)	0.144 (0.352)	0.19 (0.43)	0.00526 (0.0379)	0.788 (0.917)
del 12p13 2	59 (13%)	384	0.0231 (0.105)	0.224 (0.485)	0.132 (0.336)	0.883 (0.972)	0.0583 (0.195)	0.0357 (0.136)	0.781 (0.914)	0.0128 (0.0664)	1 (1.00)	0.473 (0.714)	0.0668 (0.215)	0.728 (0.877)
del 17q24 3	69 (16%)	374	0.0809 (0.249)	0.305 (0.565)	0.00642 (0.042)	0.257 (0.523)	0.00182 (0.0182)	0.00146 (0.0151)	0.36 (0.624)	0.848 (0.957)	1 (1.00)	0.39 (0.645)	8.66e-05 (0.00224)	0.289 (0.549)
del 22q13 32	156 (35%)	287	0.152 (0.365)	0.321 (0.578)	0.00562 (0.0398)	0.563 (0.784)	0.00018 (0.00382)	0.00372 (0.0299)	0.765 (0.909)	0.00337 (0.0281)	1 (1.00)	0.577 (0.789)	0.000117 (0.00269)	0.353 (0.615)
amp 6p21 1	96 (22%)	347	0.99 (1.00)	0.698 (0.855)	0.0328 (0.131)	0.622 (0.818)	0.00816 (0.0486)	0.24 (0.506)	0.356 (0.617)	0.237 (0.503)	0.00993 (0.0541)	0.637 (0.825)	0.00716 (0.0451)	0.216 (0.472)
amp 11p15 5	91 (21%)	352	0.779 (0.914)	0.0156 (0.0761)	0.349 (0.612)	0.156 (0.372)	0.0419 (0.153)	0.125 (0.33)	0.724 (0.874)	0.00315 (0.0267)	0.109 (0.303)	0.452 (0.695)	0.0279 (0.118)	0.265 (0.53)
amp 16p11 2	123 (28%)	320	0.693 (0.855)	0.222 (0.482)	0.00056 (0.00799)	0.583 (0.794)	0.00021 (0.00424)	0.212 (0.47)	0.596 (0.807)	0.0078 (0.0475)	1 (1.00)	0.665 (0.84)	0.000116 (0.00269)	0.443 (0.69)
amp 16q12 1	109 (25%)	334	0.159 (0.375)	0.0852 (0.257)	0.00048 (0.0075)	0.942 (1.00)	0.00063 (0.00869)	0.626 (0.82)	0.508 (0.744)	0.0146 (0.0736)	0.572 (0.789)	0.636 (0.825)	0.000328 (0.0059)	0.212 (0.47)
amp 20p11 21	248 (56%)	195	0.355 (0.617)	0.531 (0.765)	0.00179 (0.0181)	0.751 (0.897)	0.192 (0.432)	0.000435 (0.00712)	0.293 (0.552)	0.00191 (0.0189)	0.259 (0.524)	0.0193 (0.0904)	0.315 (0.575)	0.768 (0.909)
del 1p13 1	115 (26%)	328	0.102 (0.289)	0.465 (0.706)	0.00594 (0.0413)	0.488 (0.727)	0.0043 (0.0327)	0.00267 (0.0245)	0.235 (0.502)	0.0825 (0.251)	1 (1.00)	0.131 (0.336)	0.000557 (0.00799)	0.304 (0.565)
del 14q31 1	145 (33%)	298	0.675 (0.848)	0.201 (0.451)	0.217 (0.472)	0.31 (0.57)	0.0233 (0.105)	0.00491 (0.0361)	0.479 (0.719)	5.09e-06 (0.000327)	0.554 (0.784)	0.316 (0.575)	0.0128 (0.0664)	0.956 (1.00)
del 16p13 3	54 (12%)	389	0.00603 (0.0413)	0.518 (0.754)	0.0305 (0.126)	0.0315 (0.127)	0.127 (0.33)	0.129 (0.336)	0.665 (0.84)	1 (1.00)	1 (1.00)	0.333 (0.594)	0.0736 (0.233)	0.338 (0.599)
del 19p13 3	62 (14%)	381	0.369 (0.625)	0.118 (0.318)	0.00723 (0.0451)	0.807 (0.929)	4e-05 (0.00138)	0.0149 (0.0748)	0.273 (0.538)	0.229 (0.492)	0.365 (0.624)	0.0853 (0.257)	2.68e-06 (0.000202)	0.94 (1.00)
amp 2q33 1	89 (20%)	354	0.0318 (0.127)	0.555 (0.784)	0.25 (0.513)	0.787 (0.917)	0.00598 (0.0413)	0.374 (0.629)	0.478 (0.719)	0.604 (0.81)	0.491 (0.728)	0.119 (0.32)	0.00482 (0.0359)	0.364 (0.624)
del 3p14 2	85 (19%)	358	0.665 (0.84)	0.308 (0.569)	0.229 (0.492)	0.111 (0.307)	0.0472 (0.166)	0.0741 (0.234)	0.547 (0.781)	0.481 (0.72)	1 (1.00)	0.635 (0.825)	0.0197 (0.0918)	0.832 (0.946)
del 6p25 3	54 (12%)	389	0.149 (0.361)	0.0759 (0.236)	0.667 (0.84)	0.408 (0.661)	0.829 (0.945)	0.522 (0.758)	0.0596 (0.197)	0.4 (0.654)	1 (1.00)	0.394 (0.648)	0.857 (0.962)	0.0154 (0.0761)
del 21q11 2	137 (31%)	306	0.336 (0.596)	0.851 (0.958)	0.284 (0.545)	0.381 (0.635)	0.0272 (0.116)	0.131 (0.336)	0.918 (0.994)	0.00141 (0.0147)	0.227 (0.49)	0.627 (0.82)	0.0309 (0.126)	0.498 (0.737)
amp 5p13 2	86 (19%)	357	0.922 (0.997)	0.0966 (0.282)	0.246 (0.51)	0.534 (0.768)	0.0338 (0.133)	0.154 (0.368)	0.471 (0.712)	0.863 (0.965)	1 (1.00)	0.149 (0.362)	0.0186 (0.0876)	0.3 (0.562)
amp 8q12 1	231 (52%)	212	0.77 (0.909)	0.0503 (0.175)	0.643 (0.827)	0.655 (0.834)	0.508 (0.744)	0.127 (0.33)	0.507 (0.744)	0.0509 (0.175)	0.25 (0.513)	0.446 (0.692)	0.317 (0.575)	0.622 (0.818)
amp 8q24 21	255 (58%)	188	0.704 (0.857)	0.0554 (0.187)	0.0982 (0.285)	0.379 (0.634)	0.279 (0.544)	0.0246 (0.108)	0.29 (0.549)	0.124 (0.33)	0.265 (0.53)	0.365 (0.624)	0.214 (0.472)	0.536 (0.768)
del 2q22 1	24 (5%)	419	0.698 (0.855)	0.744 (0.891)	0.236 (0.503)	0.238 (0.503)	0.0822 (0.251)	1 (1.00)	0.676 (0.848)	1 (1.00)	1 (1.00)	0.643 (0.827)	0.00925 (0.0523)	0.00659 (0.0423)
del 9p21 3	59 (13%)	384	0.873 (0.969)	0.0359 (0.136)	0.841 (0.951)	0.365 (0.624)	0.33 (0.591)	0.549 (0.783)	0.207 (0.464)	0.041 (0.151)	1 (1.00)	0.643 (0.827)	0.1 (0.287)	0.377 (0.634)
del 13q14 13	19 (4%)	424	0.996 (1.00)	0.189 (0.43)	0.276 (0.541)	0.71 (0.86)	0.0344 (0.133)	1 (1.00)	0.815 (0.936)	1 (1.00)	1 (1.00)	0.872 (0.969)	0.138 (0.346)	0.0366 (0.137)
amp 5q22 3	44 (10%)	399	0.426 (0.677)	0.893 (0.978)	0.599 (0.807)	0.943 (1.00)	0.372 (0.628)	0.0311 (0.127)	0.527 (0.764)	0.244 (0.51)	0.27 (0.535)	0.0872 (0.261)	0.234 (0.5)	0.503 (0.742)
amp 17q12	112 (25%)	331	0.118 (0.318)	0.273 (0.538)	0.179 (0.414)	0.123 (0.327)	0.132 (0.336)	0.0056 (0.0398)	0.276 (0.541)	0.423 (0.675)	1 (1.00)	0.145 (0.355)	0.112 (0.309)	0.368 (0.625)
amp 17q24 1	104 (23%)	339	0.0153 (0.0761)	0.448 (0.693)	0.609 (0.811)	0.332 (0.593)	0.438 (0.686)	0.184 (0.421)	0.576 (0.789)	0.138 (0.346)	0.553 (0.784)	0.265 (0.53)	0.826 (0.944)	0.84 (0.951)
amp 19p13 2	75 (17%)	368	0.929 (1.00)	0.943 (1.00)	0.833 (0.946)	0.713 (0.862)	0.0505 (0.175)	0.328 (0.589)	0.101 (0.288)	0.466 (0.707)	0.428 (0.678)	0.116 (0.315)	0.643 (0.827)	0.872 (0.969)
del 1q43	52 (12%)	391	0.464 (0.706)	0.264 (0.53)	0.0761 (0.236)	0.122 (0.326)	0.509 (0.744)	0.372 (0.628)	0.66 (0.837)	0.83 (0.945)	0.313 (0.573)	0.435 (0.684)	0.286 (0.548)	0.157 (0.374)
del 8q11 1	30 (7%)	413	0.933 (1.00)	0.41 (0.661)	0.127 (0.33)	0.597 (0.807)	0.132 (0.336)	0.404 (0.657)	1 (1.00)	1 (1.00)	1 (1.00)	0.446 (0.692)	0.0999 (0.287)	0.0467 (0.165)
del 16q23 1	58 (13%)	385	0.0248 (0.109)	0.849 (0.957)	0.837 (0.95)	0.557 (0.784)	0.651 (0.832)	0.414 (0.665)	0.328 (0.589)	0.411 (0.661)	1 (1.00)	0.791 (0.919)	0.49 (0.728)	0.184 (0.42)
del 20p12 1	83 (19%)	360	0.216 (0.472)	0.66 (0.837)	0.501 (0.74)	0.559 (0.784)	0.295 (0.554)	1 (1.00)	0.903 (0.983)	0.0744 (0.234)	1 (1.00)	0.642 (0.827)	0.182 (0.419)	0.346 (0.608)
amp 8p11 23	156 (35%)	287	0.711 (0.86)	0.33 (0.591)	0.491 (0.728)	0.782 (0.914)	0.699 (0.855)	0.772 (0.909)	0.692 (0.855)	0.247 (0.512)	0.284 (0.545)	0.667 (0.84)	0.687 (0.855)	0.696 (0.855)
amp 8p11 21	185 (42%)	258	0.888 (0.976)	0.266 (0.53)	0.53 (0.765)	0.612 (0.811)	0.576 (0.789)	0.4 (0.654)	0.211 (0.47)	0.401 (0.654)	0.574 (0.789)	0.257 (0.523)	0.612 (0.811)	0.352 (0.615)
amp 12p13 33	111 (25%)	332	0.0997 (0.287)	0.282 (0.545)	0.109 (0.303)	0.148 (0.359)	0.281 (0.545)	0.63 (0.822)	0.826 (0.944)	0.873 (0.969)	0.576 (0.789)	0.451 (0.695)	0.41 (0.661)	0.59 (0.8)
amp 17p11 2	44 (10%)	399	0.454 (0.697)	0.61 (0.811)	0.621 (0.818)	0.566 (0.784)	0.757 (0.901)	0.646 (0.828)	0.634 (0.825)	1 (1.00)	1 (1.00)	0.804 (0.928)	0.693 (0.855)	0.168 (0.391)
amp 19q13 11	94 (21%)	349	0.408 (0.661)	0.968 (1.00)	0.82 (0.94)	0.653 (0.833)	0.158 (0.374)	0.223 (0.482)	0.132 (0.336)	0.614 (0.812)	0.512 (0.746)	0.782 (0.914)	0.684 (0.854)	0.945 (1.00)
del 2p21	16 (4%)	427	0.605 (0.81)	0.361 (0.624)	0.163 (0.381)	0.581 (0.793)	0.288 (0.549)	0.0859 (0.258)	0.612 (0.811)	0.708 (0.86)	1 (1.00)	0.63 (0.822)	0.341 (0.6)	0.767 (0.909)
del 3q26 31	44 (10%)	399	0.6 (0.807)	0.39 (0.645)	0.211 (0.47)	0.193 (0.433)	0.275 (0.54)	0.249 (0.513)	0.752 (0.897)	0.244 (0.51)	1 (1.00)	0.774 (0.91)	0.424 (0.676)	0.873 (0.969)
del 7q31 1	12 (3%)	431	0.978 (1.00)	0.973 (1.00)	0.707 (0.859)	0.606 (0.81)	1 (1.00)	0.699 (0.855)	0.562 (0.784)	1 (1.00)	1 (1.00)	1 (1.00)	0.859 (0.962)	0.387 (0.643)

'amp_2q33.1' versus 'Time to Death'

P value = 0.0318 (logrank test), Q value = 0.13

Table S1. Gene #1: 'amp_2q33.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
AMP PEAK 1(2Q33.1) MUTATED	84	22	0.0 - 74.6 (20.7)
AMP PEAK 1(2Q33.1) WILD-TYPE	346	71	0.0 - 140.4 (20.4)

Figure S1. Get High-res Image Gene #1: 'amp_2q33.1' versus Clinical Feature #1: 'Time to Death'

'amp_2q33.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00598 (Fisher's exact test), Q value = 0.041

Table S2. Gene #1: 'amp_2q33.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 1(2Q33.1) MUTATED	40	22	26
AMP PEAK 1(2Q33.1) WILD-TYPE	217	82	55

Figure S2. Get High-res Image Gene #1: 'amp_2q33.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_2q33.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00482 (Wilcoxon-test), Q value = 0.036

Table S3. Gene #1: 'amp_2q33.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 1(2Q33.1) MUTATED	85	2.9 (4.5)
AMP PEAK 1(2Q33.1) WILD-TYPE	333	1.9 (4.4)

Figure S3. Get High-res Image Gene #1: 'amp_2q33.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_5p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0338 (Fisher's exact test), Q value = 0.13

Table S4. Gene #2: 'amp_5p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 2(5P13.2) MUTATED	42	20	24
AMP PEAK 2(5P13.2) WILD-TYPE	215	84	57

Figure S4. Get High-res Image Gene #2: 'amp_5p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_5p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0186 (Wilcoxon-test), Q value = 0.088

Table S5. Gene #2: 'amp_5p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 2(5P13.2) MUTATED	83	3.0 (4.6)
AMP PEAK 2(5P13.2) WILD-TYPE	335	1.9 (4.4)

Figure S5. Get High-res Image Gene #2: 'amp_5p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_5q22.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0311 (Fisher's exact test), Q value = 0.13

Table S6. Gene #3: 'amp_5q22.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 3(5Q22.3) MUTATED	26	11
AMP PEAK 3(5Q22.3) WILD-TYPE	296	51

Figure S6. Get High-res Image Gene #3: 'amp_5q22.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_6p21.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0328 (Fisher's exact test), Q value = 0.13

Table S7. Gene #4: 'amp_6p21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 4(6P21.1) MUTATED	13	0	1	24	1	0	4	6	15	13	10	6	1
AMP PEAK 4(6P21.1) WILD-TYPE	61	1	27	107	7	1	17	6	41	26	33	12	1

Figure S7. Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_6p21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00816 (Fisher's exact test), Q value = 0.049

Table S8. Gene #4: 'amp_6p21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 4(6P21.1) MUTATED	46	22	28
AMP PEAK 4(6P21.1) WILD-TYPE	211	82	53

Figure S8. Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_6p21.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00993 (Fisher's exact test), Q value = 0.054

Table S9. Gene #4: 'amp_6p21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
AMP PEAK 4(6P21.1) MUTATED	3	93
AMP PEAK 4(6P21.1) WILD-TYPE	0	347

Figure S9. Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_6p21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00716 (Wilcoxon-test), Q value = 0.045

Table S10. Gene #4: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 4(6P21.1) MUTATED	93	3.3 (5.6)
AMP PEAK 4(6P21.1) WILD-TYPE	325	1.7 (4.0)

Figure S10. Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_7p21.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00012 (Fisher's exact test), Q value = 0.0027

Table S11. Gene #5: 'amp_7p21.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 5(7P21.2) MUTATED	40	1	15	54	2	0	13	11	38	26	30	14	1
AMP PEAK 5(7P21.2) WILD-TYPE	34	0	13	77	6	1	8	1	18	13	13	4	1

Figure S11. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_7p21.2' versus 'PATHOLOGY_N_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 0.0021

Table S12. Gene #5: 'amp_7p21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 5(7P21.2) MUTATED	123	71	56
AMP PEAK 5(7P21.2) WILD-TYPE	134	33	25

Figure S12. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_7p21.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0116 (Fisher's exact test), Q value = 0.062

Table S13. Gene #5: 'amp_7p21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 5(7P21.2) MUTATED	171	44
AMP PEAK 5(7P21.2) WILD-TYPE	151	18

Figure S13. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_7p21.2' versus 'HISTOLOGICAL_TYPE'

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

Table S14. Gene #5: 'amp_7p21.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 5(7P21.2) MUTATED	224	26
AMP PEAK 5(7P21.2) WILD-TYPE	157	34

Figure S14. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_7p21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000235 (Wilcoxon-test), Q value = 0.0046

Table S15. Gene #5: 'amp_7p21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 5(7P21.2) MUTATED	242	2.5 (4.8)
AMP PEAK 5(7P21.2) WILD-TYPE	176	1.6 (3.9)

Figure S15. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_8q12.1' versus 'YEARS_TO_BIRTH'

P value = 0.0503 (Wilcoxon-test), Q value = 0.17

Table S16. Gene #8: 'amp_8q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
AMP PEAK 8(8Q12.1) MUTATED	230	66.0 (12.5)
AMP PEAK 8(8Q12.1) WILD-TYPE	211	68.0 (13.5)

Figure S16. Get High-res Image Gene #8: 'amp_8q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0509 (Fisher's exact test), Q value = 0.18

Table S17. Gene #8: 'amp_8q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 8(8Q12.1) MUTATED	207	24
AMP PEAK 8(8Q12.1) WILD-TYPE	174	36

Figure S17. Get High-res Image Gene #8: 'amp_8q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_8q24.21' versus 'YEARS_TO_BIRTH'

P value = 0.0554 (Wilcoxon-test), Q value = 0.19

Table S18. Gene #9: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
AMP PEAK 9(8Q24.21) MUTATED	254	66.0 (12.8)
AMP PEAK 9(8Q24.21) WILD-TYPE	187	68.2 (13.2)

Figure S18. Get High-res Image Gene #9: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q24.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.0246 (Fisher's exact test), Q value = 0.11

Table S19. Gene #9: 'amp_8q24.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 9(8Q24.21) MUTATED	178	44
AMP PEAK 9(8Q24.21) WILD-TYPE	144	18

Figure S19. Get High-res Image Gene #9: 'amp_8q24.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.0156 (Wilcoxon-test), Q value = 0.076

Table S20. Gene #10: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
AMP PEAK 10(11P15.5) MUTATED	91	64.1 (12.6)
AMP PEAK 10(11P15.5) WILD-TYPE	350	67.7 (13.0)

Figure S20. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_11p15.5' versus 'PATHOLOGY_N_STAGE'

P value = 0.0419 (Fisher's exact test), Q value = 0.15

Table S21. Gene #10: 'amp_11p15.5' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 10(11P15.5) MUTATED	42	26	22
AMP PEAK 10(11P15.5) WILD-TYPE	215	78	59

Figure S21. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_11p15.5' versus 'HISTOLOGICAL_TYPE'

P value = 0.00315 (Fisher's exact test), Q value = 0.027

Table S22. Gene #10: 'amp_11p15.5' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 10(11P15.5) MUTATED	85	4
AMP PEAK 10(11P15.5) WILD-TYPE	296	56

Figure S22. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0279 (Wilcoxon-test), Q value = 0.12

Table S23. Gene #10: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 10(11P15.5) MUTATED	85	2.8 (6.2)
AMP PEAK 10(11P15.5) WILD-TYPE	333	1.9 (3.9)

Figure S23. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q12.13' versus 'NEOPLASM_DISEASESTAGE'

P value = 9e-05 (Fisher's exact test), Q value = 0.0023

Table S24. Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 12(13Q12.13) MUTATED	43	0	14	68	2	1	11	11	39	25	36	15	0
AMP PEAK 12(13Q12.13) WILD-TYPE	31	1	14	63	6	0	10	1	17	14	7	3	2

Figure S24. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_13q12.13' versus 'PATHOLOGY_N_STAGE'

P value = 0.00068 (Fisher's exact test), Q value = 0.0091

Table S25. Gene #12: 'amp_13q12.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 12(13Q12.13) MUTATED	138	76	56
AMP PEAK 12(13Q12.13) WILD-TYPE	119	28	25

Figure S25. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_M_STAGE'

P value = 0.00058 (Fisher's exact test), Q value = 0.0081

Table S26. Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 12(13Q12.13) MUTATED	186	50
AMP PEAK 12(13Q12.13) WILD-TYPE	136	12

Figure S26. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q12.13' versus 'HISTOLOGICAL_TYPE'

P value = 2.76e-07 (Fisher's exact test), Q value = 4.6e-05

Table S27. Gene #12: 'amp_13q12.13' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 12(13Q12.13) MUTATED	251	18
AMP PEAK 12(13Q12.13) WILD-TYPE	130	42

Figure S27. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_13q12.13' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0222 (Fisher's exact test), Q value = 0.1

Table S28. Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
AMP PEAK 12(13Q12.13) MUTATED	191	1	19	10
AMP PEAK 12(13Q12.13) WILD-TYPE	125	2	5	15

Figure S28. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'amp_13q12.13' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00251 (Wilcoxon-test), Q value = 0.024

Table S29. Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 12(13Q12.13) MUTATED	260	2.4 (4.8)
AMP PEAK 12(13Q12.13) WILD-TYPE	158	1.5 (3.7)

Figure S29. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q22.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00011 (Fisher's exact test), Q value = 0.0027

Table S30. Gene #13: 'amp_13q22.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 13(13Q22.1) MUTATED	45	0	15	66	2	1	12	11	39	27	35	15	0
AMP PEAK 13(13Q22.1) WILD-TYPE	29	1	13	65	6	0	9	1	17	12	8	3	2

Figure S30. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_13q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00039 (Fisher's exact test), Q value = 0.0069

Table S31. Gene #13: 'amp_13q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 13(13Q22.1) MUTATED	139	77	57
AMP PEAK 13(13Q22.1) WILD-TYPE	118	27	24

Figure S31. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00252 (Fisher's exact test), Q value = 0.024

Table S32. Gene #13: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 13(13Q22.1) MUTATED	188	49
AMP PEAK 13(13Q22.1) WILD-TYPE	134	13

Figure S32. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1.58e-06 (Fisher's exact test), Q value = 0.00013

Table S33. Gene #13: 'amp_13q22.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 13(13Q22.1) MUTATED	253	20
AMP PEAK 13(13Q22.1) WILD-TYPE	128	40

Figure S33. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_13q22.1' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.046 (Fisher's exact test), Q value = 0.16

Table S34. Gene #13: 'amp_13q22.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
AMP PEAK 13(13Q22.1) MUTATED	193	1	18	10
AMP PEAK 13(13Q22.1) WILD-TYPE	123	2	6	15

Figure S34. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'amp_13q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00299 (Wilcoxon-test), Q value = 0.026

Table S35. Gene #13: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 13(13Q22.1) MUTATED	265	2.4 (4.8)
AMP PEAK 13(13Q22.1) WILD-TYPE	153	1.6 (3.7)

Figure S35. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16p11.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00056 (Fisher's exact test), Q value = 0.008

Table S36. Gene #14: 'amp_16p11.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 14(16P11.2) MUTATED	14	1	3	29	1	0	5	9	20	16	15	5	1
AMP PEAK 14(16P11.2) WILD-TYPE	60	0	25	102	7	1	16	3	36	23	28	13	1

Figure S36. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_16p11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00021 (Fisher's exact test), Q value = 0.0042

Table S37. Gene #14: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 14(16P11.2) MUTATED	53	37	33
AMP PEAK 14(16P11.2) WILD-TYPE	204	67	48

Figure S37. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0078 (Fisher's exact test), Q value = 0.047

Table S38. Gene #14: 'amp_16p11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 14(16P11.2) MUTATED	114	8
AMP PEAK 14(16P11.2) WILD-TYPE	267	52

Figure S38. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_16p11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000116 (Wilcoxon-test), Q value = 0.0027

Table S39. Gene #14: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 14(16P11.2) MUTATED	118	3.3 (6.2)
AMP PEAK 14(16P11.2) WILD-TYPE	300	1.6 (3.4)

Figure S39. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16q12.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00048 (Fisher's exact test), Q value = 0.0075

Table S40. Gene #15: 'amp_16q12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 15(16Q12.1) MUTATED	14	1	3	22	1	0	5	9	20	14	11	4	1
AMP PEAK 15(16Q12.1) WILD-TYPE	60	0	25	109	7	1	16	3	36	25	32	14	1

Figure S40. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_16q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00063 (Fisher's exact test), Q value = 0.0087

Table S41. Gene #15: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 15(16Q12.1) MUTATED	46	35	28
AMP PEAK 15(16Q12.1) WILD-TYPE	211	69	53

Figure S41. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0146 (Fisher's exact test), Q value = 0.074

Table S42. Gene #15: 'amp_16q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 15(16Q12.1) MUTATED	101	7
AMP PEAK 15(16Q12.1) WILD-TYPE	280	53

Figure S42. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_16q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000328 (Wilcoxon-test), Q value = 0.0059

Table S43. Gene #15: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 15(16Q12.1) MUTATED	105	3.2 (6.2)
AMP PEAK 15(16Q12.1) WILD-TYPE	313	1.7 (3.6)

Figure S43. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_17q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.0056 (Fisher's exact test), Q value = 0.04

Table S44. Gene #17: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 17(17Q12) MUTATED	69	24
AMP PEAK 17(17Q12) WILD-TYPE	253	38

Figure S44. Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_17q24.1' versus 'Time to Death'

P value = 0.0153 (logrank test), Q value = 0.076

Table S45. Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
AMP PEAK 18(17Q24.1) MUTATED	101	12	0.1 - 130.7 (22.0)
AMP PEAK 18(17Q24.1) WILD-TYPE	329	81	0.0 - 140.4 (20.0)

Figure S45. Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

'amp_19p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0505 (Fisher's exact test), Q value = 0.18

Table S46. Gene #19: 'amp_19p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 19(19P13.2) MUTATED	38	26	11
AMP PEAK 19(19P13.2) WILD-TYPE	219	78	70

Figure S46. Get High-res Image Gene #19: 'amp_19p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20p12.1' versus 'Time to Death'

P value = 0.0723 (logrank test), Q value = 0.23

Table S47. Gene #21: 'amp_20p12.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
AMP PEAK 21(20P12.1) MUTATED	200	48	0.0 - 139.2 (17.8)
AMP PEAK 21(20P12.1) WILD-TYPE	230	45	0.0 - 140.4 (23.3)

Figure S47. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #1: 'Time to Death'

'amp_20p12.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00113 (Fisher's exact test), Q value = 0.012

Table S48. Gene #21: 'amp_20p12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 21(20P12.1) MUTATED	38	1	10	53	3	0	8	10	18	17	31	10	1
AMP PEAK 21(20P12.1) WILD-TYPE	36	0	18	78	5	1	13	2	38	22	12	8	1

Figure S48. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_20p12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000752 (Fisher's exact test), Q value = 0.0099

Table S49. Gene #21: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 21(20P12.1) MUTATED	136	41
AMP PEAK 21(20P12.1) WILD-TYPE	186	21

Figure S49. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0364 (Fisher's exact test), Q value = 0.14

Table S50. Gene #21: 'amp_20p12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 21(20P12.1) MUTATED	184	20
AMP PEAK 21(20P12.1) WILD-TYPE	197	40

Figure S50. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_20p12.1' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0249 (Fisher's exact test), Q value = 0.11

Table S51. Gene #21: 'amp_20p12.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
AMP PEAK 21(20P12.1) MUTATED	143	2	18	11
AMP PEAK 21(20P12.1) WILD-TYPE	173	1	6	14

Figure S51. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'amp_20p11.21' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00179 (Fisher's exact test), Q value = 0.018

Table S52. Gene #22: 'amp_20p11.21' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 22(20P11.21) MUTATED	43	1	14	65	3	0	9	11	26	21	35	12	1
AMP PEAK 22(20P11.21) WILD-TYPE	31	0	14	66	5	1	12	1	30	18	8	6	1

Figure S52. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_20p11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.000435 (Fisher's exact test), Q value = 0.0071

Table S53. Gene #22: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 22(20P11.21) MUTATED	166	47
AMP PEAK 22(20P11.21) WILD-TYPE	156	15

Figure S53. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p11.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00191 (Fisher's exact test), Q value = 0.019

Table S54. Gene #22: 'amp_20p11.21' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 22(20P11.21) MUTATED	224	22
AMP PEAK 22(20P11.21) WILD-TYPE	157	38

Figure S54. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_20p11.21' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0193 (Fisher's exact test), Q value = 0.09

Table S55. Gene #22: 'amp_20p11.21' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
AMP PEAK 22(20P11.21) MUTATED	170	2	20	12
AMP PEAK 22(20P11.21) WILD-TYPE	146	1	4	13

Figure S55. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'amp_20q11.21' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0025 (Fisher's exact test), Q value = 0.024

Table S56. Gene #23: 'amp_20q11.21' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 23(20Q11.21) MUTATED	53	1	16	84	3	1	14	12	40	31	38	16	1
AMP PEAK 23(20Q11.21) WILD-TYPE	21	0	12	47	5	0	7	0	16	8	5	2	1

Figure S56. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_20q11.21' versus 'PATHOLOGY_N_STAGE'

P value = 0.00623 (Fisher's exact test), Q value = 0.042

Table S57. Gene #23: 'amp_20q11.21' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 23(20Q11.21) MUTATED	169	84	63
AMP PEAK 23(20Q11.21) WILD-TYPE	88	20	18

Figure S57. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.00316 (Fisher's exact test), Q value = 0.027

Table S58. Gene #23: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 23(20Q11.21) MUTATED	222	54
AMP PEAK 23(20Q11.21) WILD-TYPE	100	8

Figure S58. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 9.13e-07 (Fisher's exact test), Q value = 8.4e-05

Table S59. Gene #23: 'amp_20q11.21' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 23(20Q11.21) MUTATED	289	26
AMP PEAK 23(20Q11.21) WILD-TYPE	92	34

Figure S59. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_20q11.21' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0127 (Wilcoxon-test), Q value = 0.066

Table S60. Gene #23: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 23(20Q11.21) MUTATED	303	2.3 (4.8)
AMP PEAK 23(20Q11.21) WILD-TYPE	115	1.5 (3.4)

Figure S60. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q12' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00099 (Fisher's exact test), Q value = 0.012

Table S61. Gene #24: 'amp_20q12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 24(20Q12) MUTATED	53	1	16	85	3	1	13	12	40	31	38	17	1
AMP PEAK 24(20Q12) WILD-TYPE	21	0	12	46	5	0	8	0	16	8	5	1	1

Figure S61. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_20q12' versus 'PATHOLOGY_N_STAGE'

P value = 0.00846 (Fisher's exact test), Q value = 0.05

Table S62. Gene #24: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 24(20Q12) MUTATED	170	84	63
AMP PEAK 24(20Q12) WILD-TYPE	87	20	18

Figure S62. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00105 (Fisher's exact test), Q value = 0.012

Table S63. Gene #24: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 24(20Q12) MUTATED	222	55
AMP PEAK 24(20Q12) WILD-TYPE	100	7

Figure S63. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q12' versus 'HISTOLOGICAL_TYPE'

P value = 1.52e-07 (Fisher's exact test), Q value = 3.1e-05

Table S64. Gene #24: 'amp_20q12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 24(20Q12) MUTATED	291	25
AMP PEAK 24(20Q12) WILD-TYPE	90	35

Figure S64. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_20q12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0133 (Wilcoxon-test), Q value = 0.068

Table S65. Gene #24: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 24(20Q12) MUTATED	303	2.3 (4.8)
AMP PEAK 24(20Q12) WILD-TYPE	115	1.5 (3.5)

Figure S65. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q13.12' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00041 (Fisher's exact test), Q value = 0.0069

Table S66. Gene #25: 'amp_20q13.12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
AMP PEAK 25(20Q13.12) MUTATED	52	1	17	85	3	1	13	12	40	32	39	17	1
AMP PEAK 25(20Q13.12) WILD-TYPE	22	0	11	46	5	0	8	0	16	7	4	1	1

Figure S66. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'amp_20q13.12' versus 'PATHOLOGY_N_STAGE'

P value = 0.00414 (Fisher's exact test), Q value = 0.032

Table S67. Gene #25: 'amp_20q13.12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
AMP PEAK 25(20Q13.12) MUTATED	170	84	65
AMP PEAK 25(20Q13.12) WILD-TYPE	87	20	16

Figure S67. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_M_STAGE'

P value = 0.000505 (Fisher's exact test), Q value = 0.0076

Table S68. Gene #25: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
AMP PEAK 25(20Q13.12) MUTATED	223	56
AMP PEAK 25(20Q13.12) WILD-TYPE	99	6

Figure S68. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q13.12' versus 'HISTOLOGICAL_TYPE'

P value = 6.1e-07 (Fisher's exact test), Q value = 8.4e-05

Table S69. Gene #25: 'amp_20q13.12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
AMP PEAK 25(20Q13.12) MUTATED	292	26
AMP PEAK 25(20Q13.12) WILD-TYPE	89	34

Figure S69. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'amp_20q13.12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00405 (Wilcoxon-test), Q value = 0.032

Table S70. Gene #25: 'amp_20q13.12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
AMP PEAK 25(20Q13.12) MUTATED	305	2.3 (4.8)
AMP PEAK 25(20Q13.12) WILD-TYPE	113	1.4 (3.3)

Figure S70. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p36.11' versus 'Time to Death'

P value = 0.0457 (logrank test), Q value = 0.16

Table S71. Gene #26: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 1(1P36.11) MUTATED	159	41	0.1 - 139.2 (19.1)
DEL PEAK 1(1P36.11) WILD-TYPE	271	52	0.0 - 140.4 (21.0)

Figure S71. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

'del_1p36.11' versus 'YEARS_TO_BIRTH'

P value = 0.071 (Wilcoxon-test), Q value = 0.23

Table S72. Gene #26: 'del_1p36.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 1(1P36.11) MUTATED	164	65.8 (12.2)
DEL PEAK 1(1P36.11) WILD-TYPE	277	67.6 (13.4)

Figure S72. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1p36.11' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00068 (Fisher's exact test), Q value = 0.0091

Table S73. Gene #26: 'del_1p36.11' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 1(1P36.11) MUTATED	21	0	5	45	1	1	8	4	19	17	29	10	0
DEL PEAK 1(1P36.11) WILD-TYPE	53	1	23	86	7	0	13	8	37	22	14	8	2

Figure S73. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_1p36.11' versus 'PATHOLOGY_N_STAGE'

P value = 0.00889 (Fisher's exact test), Q value = 0.051

Table S74. Gene #26: 'del_1p36.11' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 1(1P36.11) MUTATED	81	43	40
DEL PEAK 1(1P36.11) WILD-TYPE	176	61	41

Figure S74. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p36.11' versus 'PATHOLOGY_M_STAGE'

P value = 1.35e-05 (Fisher's exact test), Q value = 0.00066

Table S75. Gene #26: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 1(1P36.11) MUTATED	106	39
DEL PEAK 1(1P36.11) WILD-TYPE	216	23

Figure S75. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p36.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.00138 (Fisher's exact test), Q value = 0.015

Table S76. Gene #26: 'del_1p36.11' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 1(1P36.11) MUTATED	152	11
DEL PEAK 1(1P36.11) WILD-TYPE	229	49

Figure S76. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_1p36.11' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00256 (Wilcoxon-test), Q value = 0.024

Table S77. Gene #26: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 1(1P36.11) MUTATED	153	2.9 (5.8)
DEL PEAK 1(1P36.11) WILD-TYPE	265	1.6 (3.4)

Figure S77. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p36.11' versus 'RACE'

P value = 0.0748 (Fisher's exact test), Q value = 0.23

Table S78. Gene #26: 'del_1p36.11' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 1(1P36.11) MUTATED	1	7	16	79
DEL PEAK 1(1P36.11) WILD-TYPE	0	4	38	132

Figure S78. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #12: 'RACE'

'del_1p33' versus 'Time to Death'

P value = 0.00278 (logrank test), Q value = 0.025

Table S79. Gene #27: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 2(1P33) MUTATED	116	34	0.0 - 92.8 (17.9)
DEL PEAK 2(1P33) WILD-TYPE	314	59	0.0 - 140.4 (21.1)

Figure S79. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

'del_1p33' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0155 (Fisher's exact test), Q value = 0.076

Table S80. Gene #27: 'del_1p33' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 2(1P33) MUTATED	12	0	5	34	0	0	6	3	16	14	22	4	0
DEL PEAK 2(1P33) WILD-TYPE	62	1	23	97	8	1	15	9	40	25	21	14	2

Figure S80. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_1p33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0155 (Fisher's exact test), Q value = 0.076

Table S81. Gene #27: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 2(1P33) MUTATED	57	33	30
DEL PEAK 2(1P33) WILD-TYPE	200	71	51

Figure S81. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p33' versus 'PATHOLOGY_M_STAGE'

P value = 0.00473 (Fisher's exact test), Q value = 0.036

Table S82. Gene #27: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 2(1P33) MUTATED	77	26
DEL PEAK 2(1P33) WILD-TYPE	245	36

Figure S82. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0602 (Fisher's exact test), Q value = 0.2

Table S83. Gene #27: 'del_1p33' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 2(1P33) MUTATED	110	10
DEL PEAK 2(1P33) WILD-TYPE	271	50

Figure S83. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_1p33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.005 (Wilcoxon-test), Q value = 0.036

Table S84. Gene #27: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 2(1P33) MUTATED	113	3.2 (6.4)
DEL PEAK 2(1P33) WILD-TYPE	305	1.7 (3.4)

Figure S84. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p13.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00594 (Fisher's exact test), Q value = 0.041

Table S85. Gene #28: 'del_1p13.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 3(1P13.1) MUTATED	12	0	5	31	0	0	5	3	16	13	23	3	0
DEL PEAK 3(1P13.1) WILD-TYPE	62	1	23	100	8	1	16	9	40	26	20	15	2

Figure S85. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_1p13.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0043 (Fisher's exact test), Q value = 0.033

Table S86. Gene #28: 'del_1p13.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 3(1P13.1) MUTATED	53	31	31
DEL PEAK 3(1P13.1) WILD-TYPE	204	73	50

Figure S86. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p13.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00267 (Fisher's exact test), Q value = 0.025

Table S87. Gene #28: 'del_1p13.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 3(1P13.1) MUTATED	74	26
DEL PEAK 3(1P13.1) WILD-TYPE	248	36

Figure S87. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p13.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000557 (Wilcoxon-test), Q value = 0.008

Table S88. Gene #28: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 3(1P13.1) MUTATED	106	3.0 (4.7)
DEL PEAK 3(1P13.1) WILD-TYPE	312	1.8 (4.3)

Figure S88. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1q43' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0761 (Fisher's exact test), Q value = 0.24

Table S89. Gene #29: 'del_1q43' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 4(1Q43) MUTATED	11	0	2	10	0	0	2	5	3	6	8	1	0
DEL PEAK 4(1Q43) WILD-TYPE	63	1	26	121	8	1	19	7	53	33	35	17	2

Figure S89. Get High-res Image Gene #29: 'del_1q43' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_2q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00925 (Wilcoxon-test), Q value = 0.052

Table S90. Gene #31: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 6(2Q22.1) MUTATED	22	2.9 (3.2)
DEL PEAK 6(2Q22.1) WILD-TYPE	396	2.0 (4.5)

Figure S90. Get High-res Image Gene #31: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_2q22.1' versus 'RACE'

P value = 0.00659 (Fisher's exact test), Q value = 0.042

Table S91. Gene #31: 'del_2q22.1' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 6(2Q22.1) MUTATED	1	2	1	9
DEL PEAK 6(2Q22.1) WILD-TYPE	0	9	53	202

Figure S91. Get High-res Image Gene #31: 'del_2q22.1' versus Clinical Feature #12: 'RACE'

'del_3p26.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0568 (Fisher's exact test), Q value = 0.19

Table S92. Gene #32: 'del_3p26.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 7(3P26.2) MUTATED	6	0	1	19	0	0	4	2	11	8	14	4	0
DEL PEAK 7(3P26.2) WILD-TYPE	68	1	27	112	8	1	17	10	45	31	29	14	2

Figure S92. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_3p26.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00952 (Fisher's exact test), Q value = 0.053

Table S93. Gene #32: 'del_3p26.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 7(3P26.2) MUTATED	29	21	19
DEL PEAK 7(3P26.2) WILD-TYPE	228	83	62

Figure S93. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_3p26.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00347 (Fisher's exact test), Q value = 0.028

Table S94. Gene #32: 'del_3p26.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 7(3P26.2) MUTATED	42	18
DEL PEAK 7(3P26.2) WILD-TYPE	280	44

Figure S94. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_3p26.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0367 (Fisher's exact test), Q value = 0.14

Table S95. Gene #32: 'del_3p26.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 7(3P26.2) MUTATED	65	4
DEL PEAK 7(3P26.2) WILD-TYPE	316	56

Figure S95. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_3p26.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00616 (Wilcoxon-test), Q value = 0.042

Table S96. Gene #32: 'del_3p26.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 7(3P26.2) MUTATED	65	3.2 (5.7)
DEL PEAK 7(3P26.2) WILD-TYPE	353	1.9 (4.2)

Figure S96. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_3p14.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0472 (Fisher's exact test), Q value = 0.17

Table S97. Gene #33: 'del_3p14.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 8(3P14.2) MUTATED	40	23	22
DEL PEAK 8(3P14.2) WILD-TYPE	217	81	59

Figure S97. Get High-res Image Gene #33: 'del_3p14.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_3p14.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0741 (Fisher's exact test), Q value = 0.23

Table S98. Gene #33: 'del_3p14.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 8(3P14.2) MUTATED	55	17
DEL PEAK 8(3P14.2) WILD-TYPE	267	45

Figure S98. Get High-res Image Gene #33: 'del_3p14.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_3p14.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0197 (Wilcoxon-test), Q value = 0.092

Table S99. Gene #33: 'del_3p14.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 8(3P14.2) MUTATED	82	3.3 (6.0)
DEL PEAK 8(3P14.2) WILD-TYPE	336	1.8 (3.9)

Figure S99. Get High-res Image Gene #33: 'del_3p14.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4p16.2' versus 'Time to Death'

P value = 0.0134 (logrank test), Q value = 0.068

Table S100. Gene #35: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 10(4P16.2) MUTATED	128	35	0.2 - 91.8 (20.2)
DEL PEAK 10(4P16.2) WILD-TYPE	302	58	0.0 - 140.4 (20.5)

Figure S100. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

'del_4p16.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00084 (Fisher's exact test), Q value = 0.011

Table S101. Gene #35: 'del_4p16.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 10(4P16.2) MUTATED	16	0	6	30	2	0	5	6	15	16	26	7	0
DEL PEAK 10(4P16.2) WILD-TYPE	58	1	22	101	6	1	16	6	41	23	17	11	2

Figure S101. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_4p16.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00021 (Fisher's exact test), Q value = 0.0042

Table S102. Gene #35: 'del_4p16.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 10(4P16.2) MUTATED	58	39	36
DEL PEAK 10(4P16.2) WILD-TYPE	199	65	45

Figure S102. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4p16.2' versus 'PATHOLOGY_M_STAGE'

P value = 2.63e-05 (Fisher's exact test), Q value = 0.001

Table S103. Gene #35: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 10(4P16.2) MUTATED	80	33
DEL PEAK 10(4P16.2) WILD-TYPE	242	29

Figure S103. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4p16.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0346 (Fisher's exact test), Q value = 0.13

Table S104. Gene #35: 'del_4p16.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 10(4P16.2) MUTATED	121	11
DEL PEAK 10(4P16.2) WILD-TYPE	260	49

Figure S104. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_4p16.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0266 (Fisher's exact test), Q value = 0.11

Table S105. Gene #35: 'del_4p16.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 10(4P16.2) MUTATED	3	130
DEL PEAK 10(4P16.2) WILD-TYPE	0	310

Figure S105. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_4p16.2' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.034 (Fisher's exact test), Q value = 0.13

Table S106. Gene #35: 'del_4p16.2' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
DEL PEAK 10(4P16.2) MUTATED	93	0	13	5
DEL PEAK 10(4P16.2) WILD-TYPE	223	3	11	20

Figure S106. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'del_4p16.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.63e-05 (Wilcoxon-test), Q value = 0.0022

Table S107. Gene #35: 'del_4p16.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 10(4P16.2) MUTATED	128	3.0 (4.7)
DEL PEAK 10(4P16.2) WILD-TYPE	290	1.7 (4.3)

Figure S107. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4q22.1' versus 'Time to Death'

P value = 0.028 (logrank test), Q value = 0.12

Table S108. Gene #36: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 11(4Q22.1) MUTATED	142	38	0.0 - 102.4 (20.2)
DEL PEAK 11(4Q22.1) WILD-TYPE	288	55	0.0 - 140.4 (20.5)

Figure S108. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

'del_4q22.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00272 (Fisher's exact test), Q value = 0.025

Table S109. Gene #36: 'del_4q22.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 11(4Q22.1) MUTATED	14	0	8	37	2	0	3	7	23	19	21	6	1
DEL PEAK 11(4Q22.1) WILD-TYPE	60	1	20	94	6	1	18	5	33	20	22	12	1

Figure S109. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_4q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00013 (Fisher's exact test), Q value = 0.0028

Table S110. Gene #36: 'del_4q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 11(4Q22.1) MUTATED	64	44	37
DEL PEAK 11(4Q22.1) WILD-TYPE	193	60	44

Figure S110. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.017 (Fisher's exact test), Q value = 0.082

Table S111. Gene #36: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 11(4Q22.1) MUTATED	94	28
DEL PEAK 11(4Q22.1) WILD-TYPE	228	34

Figure S111. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0115 (Fisher's exact test), Q value = 0.062

Table S112. Gene #36: 'del_4q22.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 11(4Q22.1) MUTATED	133	11
DEL PEAK 11(4Q22.1) WILD-TYPE	248	49

Figure S112. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_4q22.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0346 (Fisher's exact test), Q value = 0.13

Table S113. Gene #36: 'del_4q22.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 11(4Q22.1) MUTATED	3	142
DEL PEAK 11(4Q22.1) WILD-TYPE	0	298

Figure S113. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_4q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 7.86e-05 (Wilcoxon-test), Q value = 0.0022

Table S114. Gene #36: 'del_4q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 11(4Q22.1) MUTATED	138	2.9 (4.6)
DEL PEAK 11(4Q22.1) WILD-TYPE	280	1.7 (4.4)

Figure S114. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4q35.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0499 (Fisher's exact test), Q value = 0.17

Table S115. Gene #37: 'del_4q35.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 12(4Q35.1) MUTATED	17	0	7	42	1	0	7	6	21	18	23	7	1
DEL PEAK 12(4Q35.1) WILD-TYPE	57	1	21	89	7	1	14	6	35	21	20	11	1

Figure S115. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_4q35.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00111 (Fisher's exact test), Q value = 0.012

Table S116. Gene #37: 'del_4q35.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 12(4Q35.1) MUTATED	71	44	38
DEL PEAK 12(4Q35.1) WILD-TYPE	186	60	43

Figure S116. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4q35.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00857 (Fisher's exact test), Q value = 0.05

Table S117. Gene #37: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 12(4Q35.1) MUTATED	103	31
DEL PEAK 12(4Q35.1) WILD-TYPE	219	31

Figure S117. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4q35.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0407 (Fisher's exact test), Q value = 0.15

Table S118. Gene #37: 'del_4q35.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 12(4Q35.1) MUTATED	3	150
DEL PEAK 12(4Q35.1) WILD-TYPE	0	290

Figure S118. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_4q35.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000314 (Wilcoxon-test), Q value = 0.0058

Table S119. Gene #37: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 12(4Q35.1) MUTATED	146	2.7 (4.3)
DEL PEAK 12(4Q35.1) WILD-TYPE	272	1.8 (4.5)

Figure S119. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q12.1' versus 'YEARS_TO_BIRTH'

P value = 0.0667 (Wilcoxon-test), Q value = 0.22

Table S120. Gene #38: 'del_5q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 13(5Q12.1) MUTATED	103	65.2 (12.1)
DEL PEAK 13(5Q12.1) WILD-TYPE	338	67.5 (13.2)

Figure S120. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_5q12.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00792 (Fisher's exact test), Q value = 0.048

Table S121. Gene #38: 'del_5q12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 13(5Q12.1) MUTATED	17	0	4	18	1	0	4	6	13	15	12	8	1
DEL PEAK 13(5Q12.1) WILD-TYPE	57	1	24	113	7	1	17	6	43	24	31	10	1

Figure S121. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_5q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00926 (Fisher's exact test), Q value = 0.052

Table S122. Gene #38: 'del_5q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 13(5Q12.1) MUTATED	47	29	27
DEL PEAK 13(5Q12.1) WILD-TYPE	210	75	54

Figure S122. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0294 (Fisher's exact test), Q value = 0.12

Table S123. Gene #38: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 13(5Q12.1) MUTATED	65	21
DEL PEAK 13(5Q12.1) WILD-TYPE	257	41

Figure S123. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0498 (Fisher's exact test), Q value = 0.17

Table S124. Gene #38: 'del_5q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 13(5Q12.1) MUTATED	95	8
DEL PEAK 13(5Q12.1) WILD-TYPE	286	52

Figure S124. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_5q12.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0123 (Fisher's exact test), Q value = 0.065

Table S125. Gene #38: 'del_5q12.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 13(5Q12.1) MUTATED	3	100
DEL PEAK 13(5Q12.1) WILD-TYPE	0	340

Figure S125. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_5q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00339 (Wilcoxon-test), Q value = 0.028

Table S126. Gene #38: 'del_5q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 13(5Q12.1) MUTATED	99	3.0 (5.1)
DEL PEAK 13(5Q12.1) WILD-TYPE	319	1.8 (4.2)

Figure S126. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q21.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 4e-04 (Fisher's exact test), Q value = 0.0069

Table S127. Gene #39: 'del_5q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 14(5Q21.1) MUTATED	18	0	5	25	0	0	4	8	17	17	16	8	2
DEL PEAK 14(5Q21.1) WILD-TYPE	56	1	23	106	8	1	17	4	39	22	27	10	0

Figure S127. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_5q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00109 (Fisher's exact test), Q value = 0.012

Table S128. Gene #39: 'del_5q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 14(5Q21.1) MUTATED	55	37	32
DEL PEAK 14(5Q21.1) WILD-TYPE	202	67	49

Figure S128. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00812 (Fisher's exact test), Q value = 0.049

Table S129. Gene #39: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 14(5Q21.1) MUTATED	80	26
DEL PEAK 14(5Q21.1) WILD-TYPE	242	36

Figure S129. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q21.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0215 (Fisher's exact test), Q value = 0.1

Table S130. Gene #39: 'del_5q21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 14(5Q21.1) MUTATED	3	121
DEL PEAK 14(5Q21.1) WILD-TYPE	0	319

Figure S130. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_5q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000264 (Wilcoxon-test), Q value = 0.005

Table S131. Gene #39: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 14(5Q21.1) MUTATED	119	3.0 (4.9)
DEL PEAK 14(5Q21.1) WILD-TYPE	299	1.7 (4.2)

Figure S131. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q22.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.024 (Fisher's exact test), Q value = 0.11

Table S132. Gene #40: 'del_5q22.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 15(5Q22.2) MUTATED	19	0	6	28	0	0	5	7	15	15	18	8	1
DEL PEAK 15(5Q22.2) WILD-TYPE	55	1	22	103	8	1	16	5	41	24	25	10	1

Figure S132. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_5q22.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0285 (Fisher's exact test), Q value = 0.12

Table S133. Gene #40: 'del_5q22.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 15(5Q22.2) MUTATED	62	34	31
DEL PEAK 15(5Q22.2) WILD-TYPE	195	70	50

Figure S133. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q22.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00312 (Fisher's exact test), Q value = 0.027

Table S134. Gene #40: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 15(5Q22.2) MUTATED	79	27
DEL PEAK 15(5Q22.2) WILD-TYPE	243	35

Figure S134. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q22.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0232 (Fisher's exact test), Q value = 0.1

Table S135. Gene #40: 'del_5q22.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 15(5Q22.2) MUTATED	3	124
DEL PEAK 15(5Q22.2) WILD-TYPE	0	316

Figure S135. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_5q22.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0117 (Wilcoxon-test), Q value = 0.062

Table S136. Gene #40: 'del_5q22.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 15(5Q22.2) MUTATED	120	2.8 (4.8)
DEL PEAK 15(5Q22.2) WILD-TYPE	298	1.8 (4.3)

Figure S136. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_6p25.3' versus 'YEARS_TO_BIRTH'

P value = 0.0759 (Wilcoxon-test), Q value = 0.24

Table S137. Gene #41: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 16(6P25.3) MUTATED	54	69.6 (12.7)
DEL PEAK 16(6P25.3) WILD-TYPE	387	66.6 (13.0)

Figure S137. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'GENDER'

P value = 0.0596 (Fisher's exact test), Q value = 0.2

Table S138. Gene #41: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	210	233
DEL PEAK 16(6P25.3) MUTATED	19	35
DEL PEAK 16(6P25.3) WILD-TYPE	191	198

Figure S138. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

'del_6p25.3' versus 'RACE'

P value = 0.0154 (Fisher's exact test), Q value = 0.076

Table S139. Gene #41: 'del_6p25.3' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 16(6P25.3) MUTATED	0	3	1	26
DEL PEAK 16(6P25.3) WILD-TYPE	1	8	53	185

Figure S139. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #12: 'RACE'

'del_6q26' versus 'Time to Death'

P value = 0.0185 (logrank test), Q value = 0.088

Table S140. Gene #42: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 17(6Q26) MUTATED	59	19	0.2 - 131.5 (17.8)
DEL PEAK 17(6Q26) WILD-TYPE	371	74	0.0 - 140.4 (21.4)

Figure S140. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

'del_6q26' versus 'PATHOLOGY_N_STAGE'

P value = 0.00285 (Fisher's exact test), Q value = 0.025

Table S141. Gene #42: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 17(6Q26) MUTATED	26	14	21
DEL PEAK 17(6Q26) WILD-TYPE	231	90	60

Figure S141. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_6q26' versus 'PATHOLOGY_M_STAGE'

P value = 0.0245 (Fisher's exact test), Q value = 0.11

Table S142. Gene #42: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 17(6Q26) MUTATED	37	14
DEL PEAK 17(6Q26) WILD-TYPE	285	48

Figure S142. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_6q26' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00105 (Wilcoxon-test), Q value = 0.012

Table S143. Gene #42: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 17(6Q26) MUTATED	57	3.5 (4.6)
DEL PEAK 17(6Q26) WILD-TYPE	361	1.9 (4.4)

Figure S143. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_6q26' versus 'RACE'

P value = 0.053 (Fisher's exact test), Q value = 0.18

Table S144. Gene #42: 'del_6q26' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 17(6Q26) MUTATED	1	3	5	26
DEL PEAK 17(6Q26) WILD-TYPE	0	8	49	185

Figure S144. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #12: 'RACE'

'del_8p23.3' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00112 (Fisher's exact test), Q value = 0.012

Table S145. Gene #44: 'del_8p23.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 19(8P23.3) MUTATED	25	0	8	41	2	0	10	6	28	23	28	10	1
DEL PEAK 19(8P23.3) WILD-TYPE	49	1	20	90	6	1	11	6	28	16	15	8	1

Figure S145. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_8p23.3' versus 'PATHOLOGY_N_STAGE'

P value = 8e-05 (Fisher's exact test), Q value = 0.0022

Table S146. Gene #44: 'del_8p23.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 19(8P23.3) MUTATED	85	51	48
DEL PEAK 19(8P23.3) WILD-TYPE	172	53	33

Figure S146. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_8p23.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.000438 (Fisher's exact test), Q value = 0.0071

Table S147. Gene #44: 'del_8p23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 19(8P23.3) MUTATED	124	39
DEL PEAK 19(8P23.3) WILD-TYPE	198	23

Figure S147. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p23.3' versus 'GENDER'

P value = 0.0159 (Fisher's exact test), Q value = 0.077

Table S148. Gene #44: 'del_8p23.3' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	210	233
DEL PEAK 19(8P23.3) MUTATED	75	110
DEL PEAK 19(8P23.3) WILD-TYPE	135	123

Figure S148. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #7: 'GENDER'

'del_8p23.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0246 (Fisher's exact test), Q value = 0.11

Table S149. Gene #44: 'del_8p23.3' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 19(8P23.3) MUTATED	167	17
DEL PEAK 19(8P23.3) WILD-TYPE	214	43

Figure S149. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_8p23.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 4.19e-05 (Wilcoxon-test), Q value = 0.0014

Table S150. Gene #44: 'del_8p23.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 19(8P23.3) MUTATED	178	2.9 (5.5)
DEL PEAK 19(8P23.3) WILD-TYPE	240	1.5 (3.3)

Figure S150. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8p22' versus 'YEARS_TO_BIRTH'

P value = 0.0318 (Wilcoxon-test), Q value = 0.13

Table S151. Gene #45: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 20(8P22) MUTATED	199	65.7 (12.1)
DEL PEAK 20(8P22) WILD-TYPE	242	67.9 (13.6)

Figure S151. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p22' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00052

Table S152. Gene #45: 'del_8p22' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 20(8P22) MUTATED	25	0	9	42	2	0	10	8	31	25	29	14	1
DEL PEAK 20(8P22) WILD-TYPE	49	1	19	89	6	1	11	4	25	14	14	4	1

Figure S152. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_8p22' versus 'PATHOLOGY_T_STAGE'

P value = 0.053 (Fisher's exact test), Q value = 0.18

Table S153. Gene #45: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	78	301	52
DEL PEAK 20(8P22) MUTATED	1	31	142	25
DEL PEAK 20(8P22) WILD-TYPE	10	47	159	27

Figure S153. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'del_8p22' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00052

Table S154. Gene #45: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 20(8P22) MUTATED	89	55	54
DEL PEAK 20(8P22) WILD-TYPE	168	49	27

Figure S154. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_8p22' versus 'PATHOLOGY_M_STAGE'

P value = 2.17e-05 (Fisher's exact test), Q value = 0.00092

Table S155. Gene #45: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 20(8P22) MUTATED	132	44
DEL PEAK 20(8P22) WILD-TYPE	190	18

Figure S155. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p22' versus 'GENDER'

P value = 0.0558 (Fisher's exact test), Q value = 0.19

Table S156. Gene #45: 'del_8p22' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	210	233
DEL PEAK 20(8P22) MUTATED	84	115
DEL PEAK 20(8P22) WILD-TYPE	126	118

Figure S156. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #7: 'GENDER'

'del_8p22' versus 'HISTOLOGICAL_TYPE'

P value = 0.00758 (Fisher's exact test), Q value = 0.047

Table S157. Gene #45: 'del_8p22' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 20(8P22) MUTATED	181	17
DEL PEAK 20(8P22) WILD-TYPE	200	43

Figure S157. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_8p22' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0403 (Fisher's exact test), Q value = 0.15

Table S158. Gene #45: 'del_8p22' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
DEL PEAK 20(8P22) MUTATED	138	1	15	6
DEL PEAK 20(8P22) WILD-TYPE	178	2	9	19

Figure S158. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'del_8p22' versus 'NUMBER_OF_LYMPH_NODES'

P value = 7.4e-07 (Wilcoxon-test), Q value = 8.4e-05

Table S159. Gene #45: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 20(8P22) MUTATED	192	2.9 (5.4)
DEL PEAK 20(8P22) WILD-TYPE	226	1.4 (3.3)

Figure S159. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8q11.1' versus 'RACE'

P value = 0.0467 (Fisher's exact test), Q value = 0.17

Table S160. Gene #46: 'del_8q11.1' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 21(8Q11.1) MUTATED	1	0	6	13
DEL PEAK 21(8Q11.1) WILD-TYPE	0	11	48	198

Figure S160. Get High-res Image Gene #46: 'del_8q11.1' versus Clinical Feature #12: 'RACE'

'del_9p21.3' versus 'YEARS_TO_BIRTH'

P value = 0.0359 (Wilcoxon-test), Q value = 0.14

Table S161. Gene #47: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 22(9P21.3) MUTATED	59	63.8 (12.7)
DEL PEAK 22(9P21.3) WILD-TYPE	382	67.4 (13.0)

Figure S161. Get High-res Image Gene #47: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.041 (Fisher's exact test), Q value = 0.15

Table S162. Gene #47: 'del_9p21.3' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 22(9P21.3) MUTATED	56	3
DEL PEAK 22(9P21.3) WILD-TYPE	325	57

Figure S162. Get High-res Image Gene #47: 'del_9p21.3' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_10p15.3' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0014 (Fisher's exact test), Q value = 0.015

Table S163. Gene #48: 'del_10p15.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 23(10P15.3) MUTATED	10	0	6	12	0	1	2	4	11	8	16	4	1
DEL PEAK 23(10P15.3) WILD-TYPE	64	1	22	119	8	0	19	8	45	31	27	14	1

Figure S163. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_10p15.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00927 (Fisher's exact test), Q value = 0.052

Table S164. Gene #48: 'del_10p15.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 23(10P15.3) MUTATED	33	23	21
DEL PEAK 23(10P15.3) WILD-TYPE	224	81	60

Figure S164. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10p15.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.000814 (Fisher's exact test), Q value = 0.011

Table S165. Gene #48: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 23(10P15.3) MUTATED	47	21
DEL PEAK 23(10P15.3) WILD-TYPE	275	41

Figure S165. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10p15.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0795 (Fisher's exact test), Q value = 0.25

Table S166. Gene #48: 'del_10p15.3' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 23(10P15.3) MUTATED	2	75
DEL PEAK 23(10P15.3) WILD-TYPE	1	365

Figure S166. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10p15.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0026 (Wilcoxon-test), Q value = 0.024

Table S167. Gene #48: 'del_10p15.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 23(10P15.3) MUTATED	74	3.1 (6.4)
DEL PEAK 23(10P15.3) WILD-TYPE	344	1.9 (3.9)

Figure S167. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'YEARS_TO_BIRTH'

P value = 0.0421 (Wilcoxon-test), Q value = 0.15

Table S168. Gene #49: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 24(10Q21.1) MUTATED	94	64.4 (13.3)
DEL PEAK 24(10Q21.1) WILD-TYPE	347	67.6 (12.9)

Figure S168. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q21.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00581 (Fisher's exact test), Q value = 0.041

Table S169. Gene #49: 'del_10q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 24(10Q21.1) MUTATED	12	0	6	18	0	1	2	3	13	14	16	5	1
DEL PEAK 24(10Q21.1) WILD-TYPE	62	1	22	113	8	0	19	9	43	25	27	13	1

Figure S169. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_10q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00979 (Fisher's exact test), Q value = 0.054

Table S170. Gene #49: 'del_10q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 24(10Q21.1) MUTATED	43	25	26
DEL PEAK 24(10Q21.1) WILD-TYPE	214	79	55

Figure S170. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00646 (Fisher's exact test), Q value = 0.042

Table S171. Gene #49: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 24(10Q21.1) MUTATED	61	22
DEL PEAK 24(10Q21.1) WILD-TYPE	261	40

Figure S171. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.061 (Fisher's exact test), Q value = 0.2

Table S172. Gene #49: 'del_10q21.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 24(10Q21.1) MUTATED	87	7
DEL PEAK 24(10Q21.1) WILD-TYPE	294	53

Figure S172. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_10q21.1' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0661 (Fisher's exact test), Q value = 0.22

Table S173. Gene #49: 'del_10q21.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
DEL PEAK 24(10Q21.1) MUTATED	63	1	10	6
DEL PEAK 24(10Q21.1) WILD-TYPE	253	2	14	19

Figure S173. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'del_10q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00401 (Wilcoxon-test), Q value = 0.032

Table S174. Gene #49: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 24(10Q21.1) MUTATED	90	3.0 (6.2)
DEL PEAK 24(10Q21.1) WILD-TYPE	328	1.8 (3.8)

Figure S174. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q23.31' versus 'YEARS_TO_BIRTH'

P value = 0.00371 (Wilcoxon-test), Q value = 0.03

Table S175. Gene #50: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 25(10Q23.31) MUTATED	106	63.8 (13.0)
DEL PEAK 25(10Q23.31) WILD-TYPE	335	68.0 (12.9)

Figure S175. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00316 (Fisher's exact test), Q value = 0.027

Table S176. Gene #50: 'del_10q23.31' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 25(10Q23.31) MUTATED	14	1	6	23	0	1	4	6	13	12	17	5	2
DEL PEAK 25(10Q23.31) WILD-TYPE	60	0	22	108	8	0	17	6	43	27	26	13	0

Figure S176. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_10q23.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0263 (Fisher's exact test), Q value = 0.11

Table S177. Gene #50: 'del_10q23.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 25(10Q23.31) MUTATED	50	30	26
DEL PEAK 25(10Q23.31) WILD-TYPE	207	74	55

Figure S177. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q23.31' versus 'PATHOLOGY_M_STAGE'

P value = 0.00944 (Fisher's exact test), Q value = 0.053

Table S178. Gene #50: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 25(10Q23.31) MUTATED	71	24
DEL PEAK 25(10Q23.31) WILD-TYPE	251	38

Figure S178. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q23.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00526 (Wilcoxon-test), Q value = 0.038

Table S179. Gene #50: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 25(10Q23.31) MUTATED	102	2.5 (3.8)
DEL PEAK 25(10Q23.31) WILD-TYPE	316	2.0 (4.6)

Figure S179. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q25.2' versus 'YEARS_TO_BIRTH'

P value = 0.0663 (Wilcoxon-test), Q value = 0.22

Table S180. Gene #51: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 26(10Q25.2) MUTATED	106	65.0 (12.9)
DEL PEAK 26(10Q25.2) WILD-TYPE	335	67.6 (13.0)

Figure S180. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q25.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0295 (Fisher's exact test), Q value = 0.12

Table S181. Gene #51: 'del_10q25.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 26(10Q25.2) MUTATED	11	0	7	25	0	1	6	4	13	12	18	5	1
DEL PEAK 26(10Q25.2) WILD-TYPE	63	1	21	106	8	0	15	8	43	27	25	13	1

Figure S181. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_10q25.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00774 (Fisher's exact test), Q value = 0.047

Table S182. Gene #51: 'del_10q25.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 26(10Q25.2) MUTATED	48	31	27
DEL PEAK 26(10Q25.2) WILD-TYPE	209	73	54

Figure S182. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q25.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00986 (Fisher's exact test), Q value = 0.054

Table S183. Gene #51: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 26(10Q25.2) MUTATED	72	24
DEL PEAK 26(10Q25.2) WILD-TYPE	250	38

Figure S183. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q25.2' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0751 (Fisher's exact test), Q value = 0.23

Table S184. Gene #51: 'del_10q25.2' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
DEL PEAK 26(10Q25.2) MUTATED	72	1	11	5
DEL PEAK 26(10Q25.2) WILD-TYPE	244	2	13	20

Figure S184. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'del_10q25.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00383 (Wilcoxon-test), Q value = 0.031

Table S185. Gene #51: 'del_10q25.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 26(10Q25.2) MUTATED	102	2.6 (3.9)
DEL PEAK 26(10Q25.2) WILD-TYPE	316	1.9 (4.6)

Figure S185. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_12p13.2' versus 'Time to Death'

P value = 0.0231 (logrank test), Q value = 0.1

Table S186. Gene #52: 'del_12p13.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 27(12P13.2) MUTATED	59	18	0.1 - 78.1 (16.2)
DEL PEAK 27(12P13.2) WILD-TYPE	371	75	0.0 - 140.4 (21.1)

Figure S186. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #1: 'Time to Death'

'del_12p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0583 (Fisher's exact test), Q value = 0.19

Table S187. Gene #52: 'del_12p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 27(12P13.2) MUTATED	26	19	14
DEL PEAK 27(12P13.2) WILD-TYPE	231	85	67

Figure S187. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_12p13.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0357 (Fisher's exact test), Q value = 0.14

Table S188. Gene #52: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 27(12P13.2) MUTATED	35	13
DEL PEAK 27(12P13.2) WILD-TYPE	287	49

Figure S188. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_12p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0128 (Fisher's exact test), Q value = 0.066

Table S189. Gene #52: 'del_12p13.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 27(12P13.2) MUTATED	57	2
DEL PEAK 27(12P13.2) WILD-TYPE	324	58

Figure S189. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_12p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0668 (Wilcoxon-test), Q value = 0.22

Table S190. Gene #52: 'del_12p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 27(12P13.2) MUTATED	55	2.3 (3.5)
DEL PEAK 27(12P13.2) WILD-TYPE	363	2.1 (4.6)

Figure S190. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_13q14.13' versus 'PATHOLOGY_N_STAGE'

P value = 0.0344 (Fisher's exact test), Q value = 0.13

Table S191. Gene #53: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 28(13Q14.13) MUTATED	11	1	7
DEL PEAK 28(13Q14.13) WILD-TYPE	246	103	74

Figure S191. Get High-res Image Gene #53: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_13q14.13' versus 'RACE'

P value = 0.0366 (Fisher's exact test), Q value = 0.14

Table S192. Gene #53: 'del_13q14.13' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	54	211
DEL PEAK 28(13Q14.13) MUTATED	1	1	3	8
DEL PEAK 28(13Q14.13) WILD-TYPE	0	10	51	203

Figure S192. Get High-res Image Gene #53: 'del_13q14.13' versus Clinical Feature #12: 'RACE'

'del_14q31.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0233 (Fisher's exact test), Q value = 0.1

Table S193. Gene #54: 'del_14q31.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 29(14Q31.1) MUTATED	71	41	33
DEL PEAK 29(14Q31.1) WILD-TYPE	186	63	48

Figure S193. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_14q31.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00491 (Fisher's exact test), Q value = 0.036

Table S194. Gene #54: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 29(14Q31.1) MUTATED	98	31
DEL PEAK 29(14Q31.1) WILD-TYPE	224	31

Figure S194. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_14q31.1' versus 'HISTOLOGICAL_TYPE'

P value = 5.09e-06 (Fisher's exact test), Q value = 0.00033

Table S195. Gene #54: 'del_14q31.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 29(14Q31.1) MUTATED	138	5
DEL PEAK 29(14Q31.1) WILD-TYPE	243	55

Figure S195. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_14q31.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0128 (Wilcoxon-test), Q value = 0.066

Table S196. Gene #54: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 29(14Q31.1) MUTATED	137	2.6 (4.9)
DEL PEAK 29(14Q31.1) WILD-TYPE	281	1.8 (4.2)

Figure S196. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q11.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.01 (Fisher's exact test), Q value = 0.054

Table S197. Gene #55: 'del_15q11.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 30(15Q11.2) MUTATED	28	0	7	40	2	0	6	8	23	20	22	11	2
DEL PEAK 30(15Q11.2) WILD-TYPE	46	1	21	91	6	1	15	4	33	19	21	7	0

Figure S197. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_15q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00873 (Fisher's exact test), Q value = 0.051

Table S198. Gene #55: 'del_15q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 30(15Q11.2) MUTATED	85	49	39
DEL PEAK 30(15Q11.2) WILD-TYPE	172	55	42

Figure S198. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q11.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00422 (Fisher's exact test), Q value = 0.032

Table S199. Gene #55: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 30(15Q11.2) MUTATED	116	35
DEL PEAK 30(15Q11.2) WILD-TYPE	206	27

Figure S199. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0456 (Fisher's exact test), Q value = 0.16

Table S200. Gene #55: 'del_15q11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 30(15Q11.2) MUTATED	155	16
DEL PEAK 30(15Q11.2) WILD-TYPE	226	44

Figure S200. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_15q11.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0589 (Fisher's exact test), Q value = 0.2

Table S201. Gene #55: 'del_15q11.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 30(15Q11.2) MUTATED	3	170
DEL PEAK 30(15Q11.2) WILD-TYPE	0	270

Figure S201. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_15q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00493 (Wilcoxon-test), Q value = 0.036

Table S202. Gene #55: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 30(15Q11.2) MUTATED	165	2.4 (3.8)
DEL PEAK 30(15Q11.2) WILD-TYPE	253	1.9 (4.8)

Figure S202. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q15.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0138 (Fisher's exact test), Q value = 0.07

Table S203. Gene #56: 'del_15q15.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 31(15Q15.2) MUTATED	29	0	7	37	2	0	6	6	22	19	24	10	2
DEL PEAK 31(15Q15.2) WILD-TYPE	45	1	21	94	6	1	15	6	34	20	19	8	0

Figure S203. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_15q15.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00649 (Fisher's exact test), Q value = 0.042

Table S204. Gene #56: 'del_15q15.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 31(15Q15.2) MUTATED	82	50	36
DEL PEAK 31(15Q15.2) WILD-TYPE	175	54	45

Figure S204. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q15.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.000501 (Fisher's exact test), Q value = 0.0076

Table S205. Gene #56: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 31(15Q15.2) MUTATED	108	36
DEL PEAK 31(15Q15.2) WILD-TYPE	214	26

Figure S205. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q15.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0317 (Fisher's exact test), Q value = 0.13

Table S206. Gene #56: 'del_15q15.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 31(15Q15.2) MUTATED	151	15
DEL PEAK 31(15Q15.2) WILD-TYPE	230	45

Figure S206. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_15q15.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0539 (Fisher's exact test), Q value = 0.18

Table S207. Gene #56: 'del_15q15.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 31(15Q15.2) MUTATED	3	165
DEL PEAK 31(15Q15.2) WILD-TYPE	0	275

Figure S207. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_15q15.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00929 (Wilcoxon-test), Q value = 0.052

Table S208. Gene #56: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 31(15Q15.2) MUTATED	161	2.3 (3.8)
DEL PEAK 31(15Q15.2) WILD-TYPE	257	1.9 (4.8)

Figure S208. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q21.1' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0692 (Fisher's exact test), Q value = 0.22

Table S209. Gene #57: 'del_15q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 32(15Q21.1) MUTATED	26	0	7	40	3	0	6	6	20	18	23	10	2
DEL PEAK 32(15Q21.1) WILD-TYPE	48	1	21	91	5	1	15	6	36	21	20	8	0

Figure S209. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_15q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0336 (Fisher's exact test), Q value = 0.13

Table S210. Gene #57: 'del_15q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 32(15Q21.1) MUTATED	83	47	35
DEL PEAK 32(15Q21.1) WILD-TYPE	174	57	46

Figure S210. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000847 (Fisher's exact test), Q value = 0.011

Table S211. Gene #57: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 32(15Q21.1) MUTATED	107	35
DEL PEAK 32(15Q21.1) WILD-TYPE	215	27

Figure S211. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0437 (Fisher's exact test), Q value = 0.16

Table S212. Gene #57: 'del_15q21.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 32(15Q21.1) MUTATED	149	15
DEL PEAK 32(15Q21.1) WILD-TYPE	232	45

Figure S212. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_15q21.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0511 (Fisher's exact test), Q value = 0.18

Table S213. Gene #57: 'del_15q21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 32(15Q21.1) MUTATED	3	162
DEL PEAK 32(15Q21.1) WILD-TYPE	0	278

Figure S213. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_15q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0349 (Wilcoxon-test), Q value = 0.13

Table S214. Gene #57: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 32(15Q21.1) MUTATED	158	2.3 (3.8)
DEL PEAK 32(15Q21.1) WILD-TYPE	260	2.0 (4.8)

Figure S214. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q22.33' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00679 (Fisher's exact test), Q value = 0.043

Table S215. Gene #58: 'del_15q22.33' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 33(15Q22.33) MUTATED	23	0	6	37	2	0	5	7	19	20	22	11	1
DEL PEAK 33(15Q22.33) WILD-TYPE	51	1	22	94	6	1	16	5	37	19	21	7	1

Figure S215. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_15q22.33' versus 'PATHOLOGY_N_STAGE'

P value = 0.00725 (Fisher's exact test), Q value = 0.045

Table S216. Gene #58: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 33(15Q22.33) MUTATED	76	44	37
DEL PEAK 33(15Q22.33) WILD-TYPE	181	60	44

Figure S216. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q22.33' versus 'PATHOLOGY_M_STAGE'

P value = 0.000456 (Fisher's exact test), Q value = 0.0073

Table S217. Gene #58: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 33(15Q22.33) MUTATED	100	34
DEL PEAK 33(15Q22.33) WILD-TYPE	222	28

Figure S217. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q22.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0421 (Fisher's exact test), Q value = 0.15

Table S218. Gene #58: 'del_15q22.33' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 33(15Q22.33) MUTATED	141	14
DEL PEAK 33(15Q22.33) WILD-TYPE	240	46

Figure S218. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_15q22.33' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.044 (Fisher's exact test), Q value = 0.16

Table S219. Gene #58: 'del_15q22.33' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients	NO	YES
ALL	3	440
DEL PEAK 33(15Q22.33) MUTATED	3	154
DEL PEAK 33(15Q22.33) WILD-TYPE	0	286

Figure S219. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #9: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_15q22.33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00617 (Wilcoxon-test), Q value = 0.042

Table S220. Gene #58: 'del_15q22.33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 33(15Q22.33) MUTATED	150	2.4 (3.8)
DEL PEAK 33(15Q22.33) WILD-TYPE	268	1.9 (4.8)

Figure S220. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_16p13.3' versus 'Time to Death'

P value = 0.00603 (logrank test), Q value = 0.041

Table S221. Gene #59: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 34(16P13.3) MUTATED	52	18	0.2 - 61.8 (19.2)
DEL PEAK 34(16P13.3) WILD-TYPE	378	75	0.0 - 140.4 (20.5)

Figure S221. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

'del_16p13.3' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0305 (Fisher's exact test), Q value = 0.13

Table S222. Gene #59: 'del_16p13.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 34(16P13.3) MUTATED	3	0	3	16	2	0	0	0	9	9	6	5	0
DEL PEAK 34(16P13.3) WILD-TYPE	71	1	25	115	6	1	21	12	47	30	37	13	2

Figure S222. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_16p13.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.0315 (Fisher's exact test), Q value = 0.13

Table S223. Gene #59: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	78	301	52
DEL PEAK 34(16P13.3) MUTATED	0	3	44	7
DEL PEAK 34(16P13.3) WILD-TYPE	11	75	257	45

Figure S223. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'del_16p13.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0736 (Wilcoxon-test), Q value = 0.23

Table S224. Gene #59: 'del_16p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 34(16P13.3) MUTATED	53	3.2 (6.0)
DEL PEAK 34(16P13.3) WILD-TYPE	365	1.9 (4.2)

Figure S224. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_16q23.1' versus 'Time to Death'

P value = 0.0248 (logrank test), Q value = 0.11

Table S225. Gene #60: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 35(16Q23.1) MUTATED	57	16	0.9 - 53.0 (18.2)
DEL PEAK 35(16Q23.1) WILD-TYPE	373	77	0.0 - 140.4 (20.6)

Figure S225. Get High-res Image Gene #60: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

'del_17p12' versus 'YEARS_TO_BIRTH'

P value = 0.0174 (Wilcoxon-test), Q value = 0.083

Table S226. Gene #61: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 36(17P12) MUTATED	248	65.8 (12.5)
DEL PEAK 36(17P12) WILD-TYPE	193	68.5 (13.5)

Figure S226. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17p12' versus 'NEOPLASM_DISEASESTAGE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00092

Table S227. Gene #61: 'del_17p12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 36(17P12) MUTATED	36	0	13	55	1	1	12	11	35	30	33	13	2
DEL PEAK 36(17P12) WILD-TYPE	38	1	15	76	7	0	9	1	21	9	10	5	0

Figure S227. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_17p12' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00052

Table S228. Gene #61: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 36(17P12) MUTATED	118	70	59
DEL PEAK 36(17P12) WILD-TYPE	139	34	22

Figure S228. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_17p12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00025 (Fisher's exact test), Q value = 0.0048

Table S229. Gene #61: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 36(17P12) MUTATED	169	48
DEL PEAK 36(17P12) WILD-TYPE	153	14

Figure S229. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_17p12' versus 'HISTOLOGICAL_TYPE'

P value = 5.14e-06 (Fisher's exact test), Q value = 0.00033

Table S230. Gene #61: 'del_17p12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 36(17P12) MUTATED	229	17
DEL PEAK 36(17P12) WILD-TYPE	152	43

Figure S230. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_17p12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.59e-07 (Wilcoxon-test), Q value = 8.4e-05

Table S231. Gene #61: 'del_17p12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 36(17P12) MUTATED	234	2.8 (5.4)
DEL PEAK 36(17P12) WILD-TYPE	184	1.2 (2.5)

Figure S231. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_17q24.3' versus 'Time to Death'

P value = 0.0809 (logrank test), Q value = 0.25

Table S232. Gene #62: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	430	93	0.0 - 140.4 (20.4)
DEL PEAK 37(17Q24.3) MUTATED	68	20	0.2 - 140.4 (20.5)
DEL PEAK 37(17Q24.3) WILD-TYPE	362	73	0.0 - 139.2 (20.4)

Figure S232. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

'del_17q24.3' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00642 (Fisher's exact test), Q value = 0.042

Table S233. Gene #62: 'del_17q24.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 37(17Q24.3) MUTATED	10	0	4	10	0	0	3	3	7	11	10	7	1
DEL PEAK 37(17Q24.3) WILD-TYPE	64	1	24	121	8	1	18	9	49	28	33	11	1

Figure S233. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_17q24.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00182 (Fisher's exact test), Q value = 0.018

Table S234. Gene #62: 'del_17q24.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 37(17Q24.3) MUTATED	27	23	19
DEL PEAK 37(17Q24.3) WILD-TYPE	230	81	62

Figure S234. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_17q24.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.00146 (Fisher's exact test), Q value = 0.015

Table S235. Gene #62: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 37(17Q24.3) MUTATED	39	18
DEL PEAK 37(17Q24.3) WILD-TYPE	283	44

Figure S235. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_17q24.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.66e-05 (Wilcoxon-test), Q value = 0.0022

Table S236. Gene #62: 'del_17q24.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 37(17Q24.3) MUTATED	65	3.0 (3.9)
DEL PEAK 37(17Q24.3) WILD-TYPE	353	1.9 (4.5)

Figure S236. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18p11.31' versus 'YEARS_TO_BIRTH'

P value = 0.0064 (Wilcoxon-test), Q value = 0.042

Table S237. Gene #63: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 38(18P11.31) MUTATED	241	65.6 (12.2)
DEL PEAK 38(18P11.31) WILD-TYPE	200	68.5 (13.7)

Figure S237. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18p11.31' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00132 (Fisher's exact test), Q value = 0.014

Table S238. Gene #63: 'del_18p11.31' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 38(18P11.31) MUTATED	36	0	10	65	2	1	9	8	33	22	32	16	1
DEL PEAK 38(18P11.31) WILD-TYPE	38	1	18	66	6	0	12	4	23	17	11	2	1

Figure S238. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_18p11.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0223 (Fisher's exact test), Q value = 0.1

Table S239. Gene #63: 'del_18p11.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 38(18P11.31) MUTATED	126	67	47
DEL PEAK 38(18P11.31) WILD-TYPE	131	37	34

Figure S239. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18p11.31' versus 'PATHOLOGY_M_STAGE'

P value = 2.22e-05 (Fisher's exact test), Q value = 0.00092

Table S240. Gene #63: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 38(18P11.31) MUTATED	161	49
DEL PEAK 38(18P11.31) WILD-TYPE	161	13

Figure S240. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18p11.31' versus 'HISTOLOGICAL_TYPE'

P value = 1.74e-10 (Fisher's exact test), Q value = 1.4e-07

Table S241. Gene #63: 'del_18p11.31' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 38(18P11.31) MUTATED	229	10
DEL PEAK 38(18P11.31) WILD-TYPE	152	50

Figure S241. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_18p11.31' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.026 (Fisher's exact test), Q value = 0.11

Table S242. Gene #63: 'del_18p11.31' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

nPatients	R0	R1	R2	RX
ALL	316	3	24	25
DEL PEAK 38(18P11.31) MUTATED	169	0	18	11
DEL PEAK 38(18P11.31) WILD-TYPE	147	3	6	14

Figure S242. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #10: 'COMPLETENESS_OF_RESECTION'

'del_18p11.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0255 (Wilcoxon-test), Q value = 0.11

Table S243. Gene #63: 'del_18p11.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 38(18P11.31) MUTATED	227	2.2 (4.1)
DEL PEAK 38(18P11.31) WILD-TYPE	191	1.9 (4.9)

Figure S243. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18q12.2' versus 'YEARS_TO_BIRTH'

P value = 0.0177 (Wilcoxon-test), Q value = 0.084

Table S244. Gene #64: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 39(18Q12.2) MUTATED	268	66.0 (12.3)
DEL PEAK 39(18Q12.2) WILD-TYPE	173	68.5 (13.9)

Figure S244. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q12.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00056 (Fisher's exact test), Q value = 0.008

Table S245. Gene #64: 'del_18q12.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 39(18Q12.2) MUTATED	38	0	15	69	2	1	11	11	37	27	35	14	1
DEL PEAK 39(18Q12.2) WILD-TYPE	36	1	13	62	6	0	10	1	19	12	8	4	1

Figure S245. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_18q12.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00087 (Fisher's exact test), Q value = 0.011

Table S246. Gene #64: 'del_18q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 39(18Q12.2) MUTATED	136	73	58
DEL PEAK 39(18Q12.2) WILD-TYPE	121	31	23

Figure S246. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18q12.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.000911 (Fisher's exact test), Q value = 0.011

Table S247. Gene #64: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 39(18Q12.2) MUTATED	187	50
DEL PEAK 39(18Q12.2) WILD-TYPE	135	12

Figure S247. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q12.2' versus 'HISTOLOGICAL_TYPE'

P value = 3.04e-09 (Fisher's exact test), Q value = 1.1e-06

Table S248. Gene #64: 'del_18q12.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 39(18Q12.2) MUTATED	252	15
DEL PEAK 39(18Q12.2) WILD-TYPE	129	45

Figure S248. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_18q12.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00158 (Wilcoxon-test), Q value = 0.016

Table S249. Gene #64: 'del_18q12.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 39(18Q12.2) MUTATED	254	2.3 (4.6)
DEL PEAK 39(18Q12.2) WILD-TYPE	164	1.7 (4.1)

Figure S249. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18q21.2' versus 'YEARS_TO_BIRTH'

P value = 0.0349 (Wilcoxon-test), Q value = 0.13

Table S250. Gene #65: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	441	67.0 (13.0)
DEL PEAK 40(18Q21.2) MUTATED	282	66.1 (12.3)
DEL PEAK 40(18Q21.2) WILD-TYPE	159	68.4 (14.1)

Figure S250. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q21.2' versus 'NEOPLASM_DISEASESTAGE'

P value = 6e-05 (Fisher's exact test), Q value = 0.0018

Table S251. Gene #65: 'del_18q21.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 40(18Q21.2) MUTATED	40	0	16	71	2	1	11	11	40	30	37	15	2
DEL PEAK 40(18Q21.2) WILD-TYPE	34	1	12	60	6	0	10	1	16	9	6	3	0

Figure S251. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_18q21.2' versus 'PATHOLOGY_N_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.0014

Table S252. Gene #65: 'del_18q21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 40(18Q21.2) MUTATED	141	77	63
DEL PEAK 40(18Q21.2) WILD-TYPE	116	27	18

Figure S252. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18q21.2' versus 'PATHOLOGY_M_STAGE'

P value = 3.53e-05 (Fisher's exact test), Q value = 0.0013

Table S253. Gene #65: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 40(18Q21.2) MUTATED	195	54
DEL PEAK 40(18Q21.2) WILD-TYPE	127	8

Figure S253. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q21.2' versus 'GENDER'

P value = 0.0606 (Fisher's exact test), Q value = 0.2

Table S254. Gene #65: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	210	233
DEL PEAK 40(18Q21.2) MUTATED	124	158
DEL PEAK 40(18Q21.2) WILD-TYPE	86	75

Figure S254. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

'del_18q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 3.88e-09 (Fisher's exact test), Q value = 1.1e-06

Table S255. Gene #65: 'del_18q21.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 40(18Q21.2) MUTATED	264	17
DEL PEAK 40(18Q21.2) WILD-TYPE	117	43

Figure S255. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_18q21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 4.33e-05 (Wilcoxon-test), Q value = 0.0014

Table S256. Gene #65: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 40(18Q21.2) MUTATED	268	2.4 (4.6)
DEL PEAK 40(18Q21.2) WILD-TYPE	150	1.5 (4.1)

Figure S256. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_19p13.3' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00723 (Fisher's exact test), Q value = 0.045

Table S257. Gene #66: 'del_19p13.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 41(19P13.3) MUTATED	8	0	1	11	0	0	4	3	6	12	10	4	1
DEL PEAK 41(19P13.3) WILD-TYPE	66	1	27	120	8	1	17	9	50	27	33	14	1

Figure S257. Get High-res Image Gene #66: 'del_19p13.3' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_19p13.3' versus 'PATHOLOGY_N_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.0014

Table S258. Gene #66: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 41(19P13.3) MUTATED	22	16	24
DEL PEAK 41(19P13.3) WILD-TYPE	235	88	57

Figure S258. Get High-res Image Gene #66: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_19p13.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0149 (Fisher's exact test), Q value = 0.075

Table S259. Gene #66: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 41(19P13.3) MUTATED	38	15
DEL PEAK 41(19P13.3) WILD-TYPE	284	47

Figure S259. Get High-res Image Gene #66: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_19p13.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 2.68e-06 (Wilcoxon-test), Q value = 2e-04

Table S260. Gene #66: 'del_19p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 41(19P13.3) MUTATED	59	4.3 (6.0)
DEL PEAK 41(19P13.3) WILD-TYPE	359	1.7 (4.1)

Figure S260. Get High-res Image Gene #66: 'del_19p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0744 (Fisher's exact test), Q value = 0.23

Table S261. Gene #67: 'del_20p12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 42(20P12.1) MUTATED	77	6
DEL PEAK 42(20P12.1) WILD-TYPE	304	54

Figure S261. Get High-res Image Gene #67: 'del_20p12.1' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0272 (Fisher's exact test), Q value = 0.12

Table S262. Gene #68: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 43(21Q11.2) MUTATED	70	32	35
DEL PEAK 43(21Q11.2) WILD-TYPE	187	72	46

Figure S262. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_21q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00141 (Fisher's exact test), Q value = 0.015

Table S263. Gene #68: 'del_21q11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 43(21Q11.2) MUTATED	127	8
DEL PEAK 43(21Q11.2) WILD-TYPE	254	52

Figure S263. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0309 (Wilcoxon-test), Q value = 0.13

Table S264. Gene #68: 'del_21q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 43(21Q11.2) MUTATED	130	3.0 (6.3)
DEL PEAK 43(21Q11.2) WILD-TYPE	288	1.7 (3.2)

Figure S264. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_22q13.32' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00562 (Fisher's exact test), Q value = 0.04

Table S265. Gene #69: 'del_22q13.32' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

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	74	1	28	131	8	1	21	12	56	39	43	18	2
DEL PEAK 44(22Q13.32) MUTATED	19	0	7	39	1	0	7	7	19	21	24	8	0
DEL PEAK 44(22Q13.32) WILD-TYPE	55	1	21	92	7	1	14	5	37	18	19	10	2

Figure S265. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'del_22q13.32' versus 'PATHOLOGY_N_STAGE'

P value = 0.00018 (Fisher's exact test), Q value = 0.0038

Table S266. Gene #69: 'del_22q13.32' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	257	104	81
DEL PEAK 44(22Q13.32) MUTATED	71	45	40
DEL PEAK 44(22Q13.32) WILD-TYPE	186	59	41

Figure S266. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_22q13.32' versus 'PATHOLOGY_M_STAGE'

P value = 0.00372 (Fisher's exact test), Q value = 0.03

Table S267. Gene #69: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	322	62
DEL PEAK 44(22Q13.32) MUTATED	103	32
DEL PEAK 44(22Q13.32) WILD-TYPE	219	30

Figure S267. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 0.00337 (Fisher's exact test), Q value = 0.028

Table S268. Gene #69: 'del_22q13.32' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	381	60
DEL PEAK 44(22Q13.32) MUTATED	145	11
DEL PEAK 44(22Q13.32) WILD-TYPE	236	49

Figure S268. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #8: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000117 (Wilcoxon-test), Q value = 0.0027

Table S269. Gene #69: 'del_22q13.32' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	418	2.1 (4.5)
DEL PEAK 44(22Q13.32) MUTATED	147	2.9 (4.9)
DEL PEAK 44(22Q13.32) WILD-TYPE	271	1.7 (4.2)

Figure S269. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #11: '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/COAD-TP/15082914/transformed.cor.cli.txt
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/COAD-TP/15076851/COAD-TP.merged_data.txt
Number of patients = 443
Number of significantly focal cnvs = 69
Number of selected clinical features = 12
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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