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

Colon Adenocarcinoma (Primary solid tumor)

21 August 2015 | analyses__2015_08_21

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/C1RN370G

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 13 clinical features across 447 patients, 259 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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
amp_7p21.2 cnv correlated to 'PATHOLOGIC_STAGE', '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', 'PATHOLOGIC_STAGE', 'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.
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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
amp_13q22.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
amp_16p11.2 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_16q12.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_17q12 cnv correlated to 'PATHOLOGY_T_STAGE', 'PATHOLOGY_M_STAGE', and 'ETHNICITY'.
amp_17q24.1 cnv correlated to 'Time to Death' and 'ETHNICITY'.
amp_19p13.2 cnv correlated to 'PATHOLOGY_N_STAGE'.
amp_20p12.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'RESIDUAL_TUMOR'.
amp_20p11.21 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'RESIDUAL_TUMOR'.
amp_20q11.21 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_20q12 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
amp_20q13.12 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_1p36.11 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_1p33 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_1p13.1 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_2q22.1 cnv correlated to 'NUMBER_OF_LYMPH_NODES' and 'RACE'.
del_3p26.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_3p14.2 cnv correlated to 'PATHOLOGY_M_STAGE' and 'NUMBER_OF_LYMPH_NODES'.
del_4p16.2 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', 'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.
del_4q22.1 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_4q35.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_5q12.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.
del_5q21.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_5q22.2 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 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_7q31.1 cnv correlated to 'ETHNICITY'.
del_8p23.3 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
del_8p22 cnv correlated to 'Time to Death', 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_T_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', 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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_10q21.1 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.
del_10q23.31 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_10q25.2 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_15q15.2 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_15q21.1 cnv correlated to 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_15q22.33 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_16p13.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', and 'PATHOLOGY_T_STAGE'.
del_16q23.1 cnv correlated to 'Time to Death'.
del_17p12 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_17q24.3 cnv correlated to 'Time to Death', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
del_18p11.31 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
del_18q12.2 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_18q21.2 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'GENDER', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_19p13.3 cnv correlated to 'PATHOLOGIC_STAGE', '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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.

Results

Overview of the results

Table 1. Get Full Table Overview of the association between significant copy number variation of 69 focal events and 13 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 259 significant findings detected.


		Clinical Features	Time to Death	YEARS TO BIRTH	PATHOLOGIC STAGE	PATHOLOGY T STAGE	PATHOLOGY N STAGE	PATHOLOGY M STAGE	GENDER	RADIATION THERAPY	HISTOLOGICAL TYPE	RESIDUAL TUMOR	NUMBER OF LYMPH NODES	RACE	ETHNICITY
	nCNV (%)	nWild-Type	logrank test	Wilcoxon-test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Fisher's exact test	Wilcoxon-test	Fisher's exact test	Fisher's exact test
del 8p22	201 (45%)	246	0.0528 (0.197)	0.0223 (0.112)	1e-05 (0.000498)	0.0425 (0.175)	1e-05 (0.000498)	7.66e-06 (0.000491)	0.0703 (0.246)	0.52 (0.814)	0.00311 (0.0294)	0.0289 (0.136)	5.51e-07 (5.7e-05)	0.381 (0.686)	0.353 (0.665)
del 4p16 2	136 (30%)	311	0.0177 (0.0972)	0.73 (0.91)	0.00086 (0.0129)	0.506 (0.798)	0.00069 (0.011)	2.12e-05 (0.000905)	0.411 (0.718)	0.469 (0.76)	0.034 (0.152)	0.0572 (0.209)	0.000195 (0.00473)	0.379 (0.684)	0.0722 (0.25)
del 8p23 3	187 (42%)	260	0.259 (0.575)	0.103 (0.325)	0.00026 (0.00569)	0.123 (0.363)	2e-05 (0.000897)	0.00017 (0.00448)	0.0212 (0.109)	0.741 (0.917)	0.0114 (0.0723)	0.0586 (0.212)	3.2e-05 (0.00122)	0.361 (0.67)	0.316 (0.625)
del 10q21 1	96 (21%)	351	0.648 (0.875)	0.0592 (0.213)	0.00702 (0.0538)	0.971 (1.00)	0.0189 (0.1)	0.00468 (0.04)	1 (1.00)	0.221 (0.517)	0.0437 (0.179)	0.108 (0.334)	0.00804 (0.0581)	0.643 (0.875)	0.0411 (0.172)
del 18p11 31	244 (55%)	203	0.639 (0.875)	0.0119 (0.0737)	0.00044 (0.00897)	0.89 (1.00)	0.0266 (0.127)	3.27e-05 (0.00122)	0.569 (0.86)	1 (1.00)	1.95e-11 (1.75e-08)	0.0474 (0.187)	0.0395 (0.168)	0.86 (0.993)	0.631 (0.875)
del 18q21 2	285 (64%)	162	0.822 (0.968)	0.0564 (0.208)	7e-05 (0.00241)	0.742 (0.917)	5e-05 (0.00179)	8.47e-05 (0.00281)	0.0392 (0.168)	1 (1.00)	4.59e-10 (1.37e-07)	0.116 (0.35)	9.74e-05 (0.00301)	0.787 (0.941)	1 (1.00)
amp 13q12 13	273 (61%)	174	0.847 (0.984)	0.566 (0.858)	0.00017 (0.00448)	0.95 (1.00)	0.00121 (0.0149)	0.00111 (0.0146)	0.771 (0.931)	1 (1.00)	1.46e-07 (2.19e-05)	0.018 (0.0972)	0.00199 (0.0228)	0.138 (0.386)	1 (1.00)
amp 13q22 1	276 (62%)	171	0.618 (0.875)	0.72 (0.907)	0.00016 (0.00448)	0.919 (1.00)	0.00021 (0.00496)	0.00299 (0.0286)	0.33 (0.644)	1 (1.00)	5.72e-07 (5.7e-05)	0.0387 (0.167)	0.00237 (0.0251)	0.109 (0.335)	1 (1.00)
del 1p36 11	166 (37%)	281	0.0231 (0.114)	0.0988 (0.319)	0.00047 (0.00922)	0.758 (0.927)	0.0151 (0.0884)	1.68e-05 (0.000795)	0.117 (0.35)	0.494 (0.785)	0.000884 (0.0129)	0.149 (0.405)	0.00355 (0.0318)	0.0917 (0.3)	0.63 (0.875)
del 1p33	122 (27%)	325	0.00112 (0.0146)	0.955 (1.00)	0.0141 (0.0851)	0.339 (0.65)	0.0262 (0.127)	0.00514 (0.0431)	0.34 (0.65)	1 (1.00)	0.0198 (0.104)	0.36 (0.67)	0.0069 (0.0534)	0.354 (0.665)	0.311 (0.619)
del 3p26 2	71 (16%)	376	0.054 (0.2)	0.6 (0.875)	0.0405 (0.17)	0.144 (0.399)	0.0214 (0.109)	0.00236 (0.0251)	0.796 (0.948)	0.366 (0.672)	0.0363 (0.159)	0.412 (0.718)	0.00913 (0.0621)	0.915 (1.00)	0.121 (0.358)
del 4q22 1	148 (33%)	299	0.0228 (0.113)	0.483 (0.774)	0.0115 (0.0723)	0.185 (0.472)	0.00039 (0.00814)	0.0188 (0.1)	0.268 (0.587)	0.725 (0.908)	0.00787 (0.0579)	0.926 (1.00)	0.000175 (0.00448)	0.421 (0.722)	0.117 (0.351)
del 5q12 1	105 (23%)	342	0.115 (0.349)	0.0896 (0.296)	0.008 (0.0581)	0.874 (1.00)	0.0159 (0.0907)	0.0213 (0.109)	0.221 (0.517)	1 (1.00)	0.0493 (0.192)	0.739 (0.916)	0.00662 (0.0516)	0.377 (0.683)	0.051 (0.194)
del 17p12	251 (56%)	196	0.426 (0.722)	0.0299 (0.14)	1e-05 (0.000498)	0.835 (0.974)	1e-05 (0.000498)	0.000491 (0.00934)	0.181 (0.469)	1 (1.00)	1.16e-06 (9.47e-05)	0.186 (0.473)	2.18e-06 (0.000163)	0.723 (0.908)	0.635 (0.875)
del 18q12 2	271 (61%)	176	0.761 (0.929)	0.0304 (0.141)	0.0007 (0.011)	0.669 (0.875)	0.00123 (0.0149)	0.00115 (0.0147)	0.146 (0.4)	1 (1.00)	3.93e-10 (1.37e-07)	0.152 (0.409)	0.00293 (0.0285)	0.901 (1.00)	1 (1.00)
amp 7p21 2	253 (57%)	194	0.832 (0.973)	0.106 (0.333)	0.00024 (0.00552)	0.361 (0.67)	0.00015 (0.00434)	0.0129 (0.0788)	0.848 (0.985)	0.31 (0.619)	0.0119 (0.0737)	0.341 (0.65)	0.000473 (0.00922)	0.594 (0.871)	0.645 (0.875)
amp 20q11 21	320 (72%)	127	0.992 (1.00)	0.557 (0.85)	0.0131 (0.0793)	0.218 (0.516)	0.00859 (0.0597)	0.0059 (0.0464)	0.209 (0.505)	1 (1.00)	3.05e-07 (3.91e-05)	0.154 (0.412)	0.0216 (0.11)	0.77 (0.931)	1 (1.00)
amp 20q12	321 (72%)	126	0.86 (0.993)	0.558 (0.85)	0.00586 (0.0464)	0.322 (0.63)	0.011 (0.0708)	0.00215 (0.0241)	0.173 (0.454)	1 (1.00)	3.88e-08 (8.7e-06)	0.151 (0.406)	0.0226 (0.113)	0.69 (0.885)	1 (1.00)
amp 20q13 12	323 (72%)	124	0.877 (1.00)	0.666 (0.875)	0.00299 (0.0286)	0.444 (0.738)	0.0058 (0.0464)	0.00109 (0.0146)	0.204 (0.496)	1 (1.00)	9.65e-08 (1.73e-05)	0.144 (0.4)	0.00747 (0.0554)	0.623 (0.875)	1 (1.00)
del 1p13 1	117 (26%)	330	0.0482 (0.19)	0.581 (0.863)	0.00587 (0.0464)	0.509 (0.801)	0.00843 (0.0595)	0.00285 (0.0281)	0.197 (0.486)	1 (1.00)	0.0824 (0.277)	0.188 (0.474)	0.000838 (0.0129)	0.259 (0.575)	0.298 (0.611)
del 6q26	61 (14%)	386	0.0233 (0.114)	0.888 (1.00)	0.139 (0.387)	0.468 (0.76)	0.00285 (0.0281)	0.0404 (0.17)	0.68 (0.881)	0.34 (0.65)	1 (1.00)	0.16 (0.424)	0.00107 (0.0146)	0.0461 (0.186)	1 (1.00)
del 10q23 31	107 (24%)	340	0.668 (0.875)	0.00467 (0.04)	0.00436 (0.038)	0.906 (1.00)	0.0356 (0.157)	0.0166 (0.094)	0.581 (0.863)	0.703 (0.891)	0.103 (0.325)	0.233 (0.535)	0.00736 (0.055)	0.794 (0.947)	0.285 (0.607)
del 12p13 2	59 (13%)	388	0.017 (0.0947)	0.22 (0.517)	0.15 (0.405)	0.894 (1.00)	0.0573 (0.209)	0.0586 (0.212)	0.781 (0.938)	1 (1.00)	0.0127 (0.0779)	0.464 (0.757)	0.0675 (0.237)	0.8 (0.951)	1 (1.00)
del 15q11 2	176 (39%)	271	0.669 (0.875)	0.63 (0.875)	0.0204 (0.106)	0.978 (1.00)	0.0195 (0.103)	0.00487 (0.0412)	0.562 (0.854)	1 (1.00)	0.0337 (0.152)	0.556 (0.85)	0.00853 (0.0597)	0.41 (0.718)	1 (1.00)
del 15q15 2	171 (38%)	276	0.524 (0.816)	0.238 (0.541)	0.0267 (0.127)	0.963 (1.00)	0.0156 (0.0898)	0.000621 (0.0105)	0.627 (0.875)	0.744 (0.917)	0.0313 (0.143)	0.339 (0.65)	0.0155 (0.0897)	0.281 (0.602)	0.648 (0.875)
del 15q22 33	160 (36%)	287	0.766 (0.93)	0.428 (0.722)	0.0146 (0.0868)	0.604 (0.875)	0.0179 (0.0972)	0.000554 (0.00994)	0.491 (0.782)	0.728 (0.908)	0.0416 (0.173)	0.501 (0.793)	0.0107 (0.0691)	0.248 (0.56)	0.633 (0.875)
del 17q24 3	69 (15%)	378	0.0657 (0.233)	0.296 (0.611)	0.00329 (0.0304)	0.268 (0.587)	0.00209 (0.0237)	0.00183 (0.0217)	0.362 (0.67)	1 (1.00)	1 (1.00)	0.421 (0.722)	8.97e-05 (0.00287)	0.276 (0.595)	1 (1.00)
del 22q13 32	158 (35%)	289	0.188 (0.474)	0.368 (0.673)	0.00101 (0.0142)	0.634 (0.875)	0.00068 (0.011)	0.00402 (0.0357)	0.622 (0.875)	1 (1.00)	0.00228 (0.0251)	0.65 (0.875)	0.000252 (0.00565)	0.321 (0.63)	0.611 (0.875)
amp 8q24 21	258 (58%)	189	0.334 (0.645)	0.0465 (0.187)	0.0503 (0.193)	0.409 (0.718)	0.259 (0.575)	0.018 (0.0972)	0.292 (0.61)	1 (1.00)	0.0675 (0.237)	0.317 (0.625)	0.215 (0.513)	0.609 (0.875)	1 (1.00)
amp 11p15 5	91 (20%)	356	0.639 (0.875)	0.0148 (0.0871)	0.374 (0.68)	0.132 (0.373)	0.0302 (0.14)	0.131 (0.373)	0.64 (0.875)	0.692 (0.885)	0.00317 (0.0297)	0.475 (0.765)	0.0283 (0.134)	0.193 (0.478)	1 (1.00)
amp 16p11 2	125 (28%)	322	0.614 (0.875)	0.305 (0.615)	0.00054 (0.00989)	0.523 (0.816)	0.0006 (0.0103)	0.286 (0.607)	0.675 (0.878)	1 (1.00)	0.00282 (0.0281)	0.654 (0.875)	0.00018 (0.00449)	0.518 (0.812)	0.311 (0.619)
amp 16q12 1	111 (25%)	336	0.147 (0.401)	0.131 (0.373)	0.00034 (0.00726)	0.909 (1.00)	0.00118 (0.0149)	0.872 (1.00)	0.585 (0.863)	1 (1.00)	0.00352 (0.0318)	0.62 (0.875)	0.0005 (0.00934)	0.289 (0.609)	0.259 (0.575)
amp 20p12 1	208 (47%)	239	0.0902 (0.296)	0.834 (0.974)	0.00283 (0.0281)	0.66 (0.875)	0.373 (0.679)	0.00089 (0.0129)	0.184 (0.472)	0.0867 (0.289)	0.0361 (0.159)	0.0466 (0.187)	0.348 (0.661)	0.425 (0.722)	1 (1.00)
amp 20p11 21	251 (56%)	196	0.453 (0.748)	0.67 (0.875)	0.00238 (0.0251)	0.658 (0.875)	0.26 (0.575)	0.000848 (0.0129)	0.252 (0.566)	0.196 (0.486)	0.00119 (0.0149)	0.047 (0.187)	0.403 (0.715)	0.882 (1.00)	0.632 (0.875)
del 4q35 1	156 (35%)	291	0.345 (0.657)	0.132 (0.373)	0.0498 (0.192)	0.367 (0.673)	0.00263 (0.0274)	0.00968 (0.0638)	0.427 (0.722)	0.294 (0.61)	0.108 (0.335)	0.528 (0.819)	0.000647 (0.0107)	0.135 (0.379)	0.124 (0.364)
del 5q21 1	126 (28%)	321	0.118 (0.352)	0.146 (0.4)	0.00013 (0.00389)	1 (1.00)	0.00187 (0.0218)	0.0089 (0.0613)	0.292 (0.61)	1 (1.00)	0.644 (0.875)	0.505 (0.798)	0.000572 (0.0101)	0.46 (0.755)	0.0775 (0.263)
del 5q22 2	129 (29%)	318	0.0921 (0.3)	0.23 (0.532)	0.0153 (0.0891)	1 (1.00)	0.0469 (0.187)	0.0034 (0.0311)	0.117 (0.35)	0.716 (0.905)	0.221 (0.517)	0.185 (0.472)	0.02 (0.104)	0.454 (0.748)	0.0802 (0.271)
del 10p15 3	77 (17%)	370	0.876 (1.00)	0.427 (0.722)	0.00231 (0.0251)	0.954 (1.00)	0.00931 (0.0628)	0.001 (0.0142)	0.802 (0.953)	0.683 (0.883)	0.465 (0.757)	0.727 (0.908)	0.00268 (0.0277)	0.417 (0.721)	0.563 (0.854)
del 10q25 2	107 (24%)	340	0.174 (0.454)	0.077 (0.263)	0.0498 (0.192)	0.415 (0.719)	0.00987 (0.0646)	0.0171 (0.0947)	1 (1.00)	0.695 (0.885)	0.103 (0.325)	0.0934 (0.304)	0.00543 (0.0447)	1 (1.00)	0.259 (0.575)
del 14q31 1	147 (33%)	300	0.649 (0.875)	0.274 (0.595)	0.219 (0.517)	0.304 (0.615)	0.0376 (0.164)	0.00895 (0.0613)	0.42 (0.722)	0.724 (0.908)	9.56e-07 (8.58e-05)	0.406 (0.718)	0.0169 (0.0947)	0.938 (1.00)	1 (1.00)
del 15q21 1	168 (38%)	279	0.364 (0.67)	0.604 (0.875)	0.101 (0.325)	0.981 (1.00)	0.0649 (0.231)	0.00103 (0.0142)	0.434 (0.725)	0.737 (0.916)	0.032 (0.145)	0.216 (0.513)	0.0534 (0.199)	0.198 (0.487)	0.63 (0.875)
del 19p13 3	62 (14%)	385	0.363 (0.67)	0.116 (0.35)	0.00586 (0.0464)	0.843 (0.982)	3e-05 (0.00122)	0.0171 (0.0947)	0.274 (0.595)	1 (1.00)	0.229 (0.532)	0.0987 (0.319)	2.82e-06 (0.000195)	1 (1.00)	1 (1.00)
amp 2q33 1	91 (20%)	356	0.0512 (0.194)	0.473 (0.763)	0.287 (0.608)	0.644 (0.875)	0.00995 (0.0647)	0.298 (0.611)	0.41 (0.718)	0.687 (0.884)	0.494 (0.785)	0.15 (0.406)	0.00958 (0.0636)	0.314 (0.625)	0.228 (0.531)
amp 6p21 1	96 (21%)	351	0.965 (1.00)	0.715 (0.905)	0.0146 (0.0868)	0.67 (0.875)	0.00824 (0.0591)	0.316 (0.625)	0.357 (0.665)	1 (1.00)	0.237 (0.541)	0.679 (0.881)	0.00731 (0.055)	0.163 (0.43)	0.577 (0.863)
amp 17q12	114 (26%)	333	0.157 (0.419)	0.331 (0.644)	0.188 (0.474)	0.0721 (0.25)	0.16 (0.424)	0.0042 (0.0369)	0.232 (0.534)	0.697 (0.886)	0.204 (0.496)	0.19 (0.474)	0.163 (0.43)	0.306 (0.615)	0.0599 (0.215)
del 6p25 3	55 (12%)	392	0.207 (0.503)	0.0526 (0.197)	0.582 (0.863)	0.457 (0.751)	0.815 (0.963)	0.674 (0.878)	0.0601 (0.215)	0.3 (0.614)	0.401 (0.714)	0.356 (0.665)	0.856 (0.992)	0.0458 (0.186)	1 (1.00)
del 16p13 3	55 (12%)	392	0.0115 (0.0723)	0.637 (0.875)	0.0405 (0.17)	0.032 (0.145)	0.164 (0.431)	0.201 (0.492)	0.666 (0.875)	0.609 (0.875)	1 (1.00)	0.352 (0.665)	0.0744 (0.257)	0.334 (0.645)	0.449 (0.743)
del 21q11 2	139 (31%)	308	0.307 (0.615)	0.771 (0.931)	0.306 (0.615)	0.412 (0.718)	0.0392 (0.168)	0.104 (0.328)	0.76 (0.928)	0.471 (0.762)	0.0014 (0.0167)	0.718 (0.907)	0.0489 (0.191)	0.549 (0.847)	0.0887 (0.294)
amp 5p13 2	87 (19%)	360	0.664 (0.875)	0.108 (0.334)	0.12 (0.354)	0.481 (0.772)	0.0458 (0.186)	0.114 (0.346)	0.55 (0.847)	1 (1.00)	1 (1.00)	0.182 (0.469)	0.0254 (0.124)	0.292 (0.61)	1 (1.00)
amp 8q12 1	234 (52%)	213	0.79 (0.944)	0.0424 (0.175)	0.543 (0.84)	0.694 (0.885)	0.463 (0.757)	0.0756 (0.26)	0.569 (0.86)	1 (1.00)	0.0182 (0.0977)	0.355 (0.665)	0.316 (0.625)	0.656 (0.875)	0.632 (0.875)
amp 17q24 1	106 (24%)	341	0.0282 (0.134)	0.529 (0.819)	0.661 (0.875)	0.237 (0.541)	0.381 (0.686)	0.145 (0.4)	0.738 (0.916)	0.695 (0.885)	0.103 (0.325)	0.298 (0.611)	0.687 (0.884)	0.781 (0.938)	0.051 (0.194)
del 2q22 1	24 (5%)	423	0.758 (0.927)	0.744 (0.917)	0.217 (0.515)	0.272 (0.595)	0.0829 (0.278)	1 (1.00)	0.676 (0.879)	1 (1.00)	1 (1.00)	0.885 (1.00)	0.00947 (0.0634)	0.00542 (0.0447)	1 (1.00)
del 3p14 2	87 (19%)	360	0.276 (0.595)	0.422 (0.722)	0.259 (0.575)	0.13 (0.373)	0.0762 (0.261)	0.0548 (0.202)	0.72 (0.907)	0.216 (0.513)	0.385 (0.691)	0.694 (0.885)	0.0267 (0.127)	0.662 (0.875)	0.587 (0.863)
del 9p21 3	61 (14%)	386	0.899 (1.00)	0.0718 (0.25)	0.783 (0.938)	0.616 (0.875)	0.413 (0.718)	0.697 (0.886)	0.129 (0.373)	0.369 (0.673)	0.00834 (0.0594)	0.657 (0.875)	0.131 (0.373)	0.401 (0.714)	0.439 (0.731)
del 13q14 13	19 (4%)	428	0.942 (1.00)	0.189 (0.474)	0.273 (0.595)	0.684 (0.883)	0.0338 (0.152)	1 (1.00)	0.815 (0.963)	1 (1.00)	1 (1.00)	0.874 (1.00)	0.139 (0.387)	0.0341 (0.152)	1 (1.00)
amp 5q22 3	45 (10%)	402	0.454 (0.748)	0.974 (1.00)	0.57 (0.86)	0.964 (1.00)	0.478 (0.768)	0.0381 (0.165)	0.638 (0.875)	1 (1.00)	0.247 (0.559)	0.11 (0.336)	0.295 (0.611)	0.433 (0.725)	0.379 (0.684)
amp 19p13 2	75 (17%)	372	0.558 (0.85)	0.928 (1.00)	0.786 (0.941)	0.748 (0.92)	0.0487 (0.191)	0.335 (0.645)	0.128 (0.373)	0.201 (0.491)	0.578 (0.863)	0.106 (0.333)	0.643 (0.875)	0.931 (1.00)	0.587 (0.863)
del 7q31 1	13 (3%)	434	0.525 (0.816)	0.913 (1.00)	0.767 (0.93)	0.602 (0.875)	1 (1.00)	1 (1.00)	0.78 (0.938)	0.245 (0.556)	1 (1.00)	1 (1.00)	0.687 (0.884)	0.806 (0.955)	0.00719 (0.0547)
del 8q11 1	30 (7%)	417	0.95 (1.00)	0.404 (0.715)	0.11 (0.336)	0.618 (0.875)	0.131 (0.373)	0.408 (0.718)	1 (1.00)	1 (1.00)	1 (1.00)	0.554 (0.85)	0.1 (0.322)	0.0514 (0.194)	1 (1.00)
del 16q23 1	60 (13%)	387	0.0225 (0.113)	0.669 (0.875)	0.858 (0.993)	0.609 (0.875)	0.573 (0.861)	0.32 (0.63)	0.489 (0.781)	1 (1.00)	0.423 (0.722)	0.829 (0.972)	0.423 (0.722)	0.0812 (0.274)	0.0879 (0.292)
del 20p12 1	84 (19%)	363	0.226 (0.526)	0.763 (0.929)	0.513 (0.806)	0.572 (0.861)	0.333 (0.645)	1 (1.00)	1 (1.00)	0.374 (0.68)	0.031 (0.143)	0.583 (0.863)	0.184 (0.472)	0.356 (0.665)	1 (1.00)
amp 8p11 23	157 (35%)	290	0.435 (0.725)	0.354 (0.665)	0.414 (0.718)	0.721 (0.907)	0.663 (0.875)	0.667 (0.875)	0.766 (0.93)	0.726 (0.908)	0.148 (0.403)	0.664 (0.875)	0.627 (0.875)	0.66 (0.875)	1 (1.00)
amp 8p11 21	186 (42%)	261	0.658 (0.875)	0.283 (0.604)	0.617 (0.875)	0.6 (0.875)	0.638 (0.875)	0.579 (0.863)	0.212 (0.508)	0.506 (0.798)	0.263 (0.58)	0.304 (0.615)	0.557 (0.85)	0.278 (0.598)	0.636 (0.875)
amp 12p13 33	111 (25%)	336	0.209 (0.505)	0.294 (0.61)	0.19 (0.474)	0.174 (0.454)	0.288 (0.608)	0.75 (0.922)	0.743 (0.917)	1 (1.00)	0.873 (1.00)	0.399 (0.713)	0.409 (0.718)	0.553 (0.85)	0.575 (0.863)
amp 17p11 2	44 (10%)	403	0.597 (0.874)	0.625 (0.875)	0.627 (0.875)	0.465 (0.757)	0.638 (0.875)	0.818 (0.964)	0.635 (0.875)	1 (1.00)	1 (1.00)	0.846 (0.984)	0.693 (0.885)	0.179 (0.464)	1 (1.00)
amp 19q13 11	95 (21%)	352	0.29 (0.609)	0.98 (1.00)	0.823 (0.968)	0.524 (0.816)	0.119 (0.352)	0.303 (0.615)	0.132 (0.373)	0.429 (0.722)	0.614 (0.875)	0.762 (0.929)	0.758 (0.927)	0.947 (1.00)	1 (1.00)
del 1q43	53 (12%)	394	0.585 (0.863)	0.354 (0.665)	0.175 (0.456)	0.132 (0.373)	0.585 (0.863)	0.388 (0.695)	0.661 (0.875)	0.281 (0.602)	0.83 (0.972)	0.43 (0.722)	0.288 (0.608)	0.197 (0.486)	0.429 (0.722)
del 2p21	17 (4%)	430	0.92 (1.00)	0.449 (0.743)	0.19 (0.474)	0.644 (0.875)	0.433 (0.725)	0.327 (0.64)	0.805 (0.955)	1 (1.00)	0.489 (0.781)	0.66 (0.875)	0.472 (0.763)	0.605 (0.875)	0.128 (0.373)
del 3q26 31	45 (10%)	402	0.777 (0.937)	0.296 (0.611)	0.232 (0.534)	0.212 (0.508)	0.304 (0.615)	0.267 (0.587)	0.875 (1.00)	0.606 (0.875)	0.247 (0.559)	0.816 (0.963)	0.426 (0.722)	0.824 (0.968)	1 (1.00)

'amp_2q33.1' versus 'Time to Death'

P value = 0.0512 (logrank test), Q value = 0.19

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

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
AMP PEAK 1(2Q33.1) MUTATED	85	24	0.0 - 85.5 (21.4)
AMP PEAK 1(2Q33.1) WILD-TYPE	348	75	0.0 - 148.0 (21.9)

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 = 0.00995 (Fisher's exact test), Q value = 0.065

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

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 1(2Q33.1) MUTATED	42	23	26
AMP PEAK 1(2Q33.1) WILD-TYPE	218	82	56

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 = 0.00958 (Wilcoxon-test), Q value = 0.064

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

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 1(2Q33.1) MUTATED	87	2.9 (4.4)
AMP PEAK 1(2Q33.1) WILD-TYPE	334	1.9 (4.5)

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 = 0.0458 (Fisher's exact test), Q value = 0.19

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

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 2(5P13.2) MUTATED	43	20	24
AMP PEAK 2(5P13.2) WILD-TYPE	217	85	58

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 = 0.0254 (Wilcoxon-test), Q value = 0.12

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

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 2(5P13.2) MUTATED	84	3.0 (4.6)
AMP PEAK 2(5P13.2) WILD-TYPE	337	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 = 0.0381 (Fisher's exact test), Q value = 0.16

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

nPatients	0	1
ALL	324	64
AMP PEAK 3(5Q22.3) MUTATED	27	11
AMP PEAK 3(5Q22.3) WILD-TYPE	297	53

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

'amp_6p21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0146 (Fisher's exact test), Q value = 0.087

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

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 4(6P21.1) MUTATED	13	0	1	24	1	0	3	5	16	14	10	6	1
AMP PEAK 4(6P21.1) WILD-TYPE	61	1	27	109	7	1	18	4	43	26	35	11	1

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

'amp_6p21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00824 (Fisher's exact test), Q value = 0.059

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

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 4(6P21.1) MUTATED	46	22	28
AMP PEAK 4(6P21.1) WILD-TYPE	214	83	54

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

'amp_6p21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00731 (Wilcoxon-test), Q value = 0.055

Table S9. Gene #4: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 4(6P21.1) MUTATED	93	3.3 (5.6)
AMP PEAK 4(6P21.1) WILD-TYPE	328	1.8 (4.0)

Figure S9. Get High-res Image Gene #4: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_7p21.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00024 (Fisher's exact test), Q value = 0.0055

Table S10. Gene #5: 'amp_7p21.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 5(7P21.2) MUTATED	40	1	15	55	2	0	14	8	41	26	31	13	1
AMP PEAK 5(7P21.2) WILD-TYPE	34	0	13	78	6	1	7	1	18	14	14	4	1

Figure S10. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_7p21.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00015 (Fisher's exact test), Q value = 0.0043

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

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 5(7P21.2) MUTATED	125	72	56
AMP PEAK 5(7P21.2) WILD-TYPE	135	33	26

Figure S11. 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 = 0.0129 (Fisher's exact test), Q value = 0.079

Table S12. Gene #5: 'amp_7p21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 5(7P21.2) MUTATED	172	45
AMP PEAK 5(7P21.2) WILD-TYPE	152	19

Figure S12. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_7p21.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0119 (Fisher's exact test), Q value = 0.074

Table S13. Gene #5: 'amp_7p21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 5(7P21.2) MUTATED	226	25
AMP PEAK 5(7P21.2) WILD-TYPE	156	35

Figure S13. Get High-res Image Gene #5: 'amp_7p21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_7p21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000473 (Wilcoxon-test), Q value = 0.0092

Table S14. Gene #5: 'amp_7p21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 5(7P21.2) MUTATED	244	2.4 (4.8)
AMP PEAK 5(7P21.2) WILD-TYPE	177	1.6 (4.0)

Figure S14. 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 = 0.0424 (Wilcoxon-test), Q value = 0.17

Table S15. Gene #8: 'amp_8q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
AMP PEAK 8(8Q12.1) MUTATED	233	65.9 (12.6)
AMP PEAK 8(8Q12.1) WILD-TYPE	212	68.1 (13.5)

Figure S15. Get High-res Image Gene #8: 'amp_8q12.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0182 (Fisher's exact test), Q value = 0.098

Table S16. Gene #8: 'amp_8q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 8(8Q12.1) MUTATED	210	23
AMP PEAK 8(8Q12.1) WILD-TYPE	172	37

Figure S16. Get High-res Image Gene #8: 'amp_8q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_8q24.21' versus 'YEARS_TO_BIRTH'

P value = 0.0465 (Wilcoxon-test), Q value = 0.19

Table S17. Gene #9: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
AMP PEAK 9(8Q24.21) MUTATED	257	66.0 (12.9)
AMP PEAK 9(8Q24.21) WILD-TYPE	188	68.2 (13.2)

Figure S17. Get High-res Image Gene #9: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q24.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0503 (Fisher's exact test), Q value = 0.19

Table S18. Gene #9: 'amp_8q24.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 9(8Q24.21) MUTATED	41	0	18	69	3	1	10	8	35	23	33	13	0
AMP PEAK 9(8Q24.21) WILD-TYPE	33	1	10	64	5	0	11	1	24	17	12	4	2

Figure S18. Get High-res Image Gene #9: 'amp_8q24.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_8q24.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.018 (Fisher's exact test), Q value = 0.097

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

nPatients	0	1
ALL	324	64
AMP PEAK 9(8Q24.21) MUTATED	179	46
AMP PEAK 9(8Q24.21) WILD-TYPE	145	18

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

'amp_8q24.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.0675 (Fisher's exact test), Q value = 0.24

Table S20. Gene #9: 'amp_8q24.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 9(8Q24.21) MUTATED	228	28
AMP PEAK 9(8Q24.21) WILD-TYPE	154	32

Figure S20. Get High-res Image Gene #9: 'amp_8q24.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.0148 (Wilcoxon-test), Q value = 0.087

Table S21. Gene #10: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
AMP PEAK 10(11P15.5) MUTATED	91	64.1 (12.6)
AMP PEAK 10(11P15.5) WILD-TYPE	354	67.7 (13.1)

Figure S21. 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 = 0.0302 (Fisher's exact test), Q value = 0.14

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

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 10(11P15.5) MUTATED	42	27	22
AMP PEAK 10(11P15.5) WILD-TYPE	218	78	60

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

'amp_11p15.5' versus 'HISTOLOGICAL_TYPE'

P value = 0.00317 (Fisher's exact test), Q value = 0.03

Table S23. Gene #10: 'amp_11p15.5' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 10(11P15.5) MUTATED	85	4
AMP PEAK 10(11P15.5) WILD-TYPE	297	56

Figure S23. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0283 (Wilcoxon-test), Q value = 0.13

Table S24. Gene #10: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 10(11P15.5) MUTATED	85	2.8 (6.2)
AMP PEAK 10(11P15.5) WILD-TYPE	336	1.9 (3.9)

Figure S24. Get High-res Image Gene #10: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q12.13' versus 'PATHOLOGIC_STAGE'

P value = 0.00017 (Fisher's exact test), Q value = 0.0045

Table S25. Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 12(13Q12.13) MUTATED	43	0	14	70	2	1	12	9	41	25	37	14	0
AMP PEAK 12(13Q12.13) WILD-TYPE	31	1	14	63	6	0	9	0	18	15	8	3	2

Figure S25. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_N_STAGE'

P value = 0.00121 (Fisher's exact test), Q value = 0.015

Table S26. Gene #12: 'amp_13q12.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 12(13Q12.13) MUTATED	140	76	57
AMP PEAK 12(13Q12.13) WILD-TYPE	120	29	25

Figure S26. 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 = 0.00111 (Fisher's exact test), Q value = 0.015

Table S27. Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 12(13Q12.13) MUTATED	188	51
AMP PEAK 12(13Q12.13) WILD-TYPE	136	13

Figure S27. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q12.13' versus 'HISTOLOGICAL_TYPE'

P value = 1.46e-07 (Fisher's exact test), Q value = 2.2e-05

Table S28. Gene #12: 'amp_13q12.13' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 12(13Q12.13) MUTATED	253	18
AMP PEAK 12(13Q12.13) WILD-TYPE	129	42

Figure S28. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_13q12.13' versus 'RESIDUAL_TUMOR'

P value = 0.018 (Fisher's exact test), Q value = 0.097

Table S29. Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
AMP PEAK 12(13Q12.13) MUTATED	193	1	20	10
AMP PEAK 12(13Q12.13) WILD-TYPE	126	2	5	15

Figure S29. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_13q12.13' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00199 (Wilcoxon-test), Q value = 0.023

Table S30. Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 12(13Q12.13) MUTATED	262	2.4 (4.8)
AMP PEAK 12(13Q12.13) WILD-TYPE	159	1.5 (3.7)

Figure S30. Get High-res Image Gene #12: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00016 (Fisher's exact test), Q value = 0.0045

Table S31. Gene #13: 'amp_13q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 13(13Q22.1) MUTATED	45	0	15	67	2	1	13	9	41	27	36	14	0
AMP PEAK 13(13Q22.1) WILD-TYPE	29	1	13	66	6	0	8	0	18	13	9	3	2

Figure S31. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00021 (Fisher's exact test), Q value = 0.005

Table S32. Gene #13: 'amp_13q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 13(13Q22.1) MUTATED	140	78	58
AMP PEAK 13(13Q22.1) WILD-TYPE	120	27	24

Figure S32. 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 = 0.00299 (Fisher's exact test), Q value = 0.029

Table S33. Gene #13: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 13(13Q22.1) MUTATED	189	50
AMP PEAK 13(13Q22.1) WILD-TYPE	135	14

Figure S33. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 5.72e-07 (Fisher's exact test), Q value = 5.7e-05

Table S34. Gene #13: 'amp_13q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 13(13Q22.1) MUTATED	254	19
AMP PEAK 13(13Q22.1) WILD-TYPE	128	41

Figure S34. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_13q22.1' versus 'RESIDUAL_TUMOR'

P value = 0.0387 (Fisher's exact test), Q value = 0.17

Table S35. Gene #13: 'amp_13q22.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
AMP PEAK 13(13Q22.1) MUTATED	194	1	19	10
AMP PEAK 13(13Q22.1) WILD-TYPE	125	2	6	15

Figure S35. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_13q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00237 (Wilcoxon-test), Q value = 0.025

Table S36. Gene #13: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 13(13Q22.1) MUTATED	267	2.4 (4.8)
AMP PEAK 13(13Q22.1) WILD-TYPE	154	1.6 (3.7)

Figure S36. Get High-res Image Gene #13: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16p11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00054 (Fisher's exact test), Q value = 0.0099

Table S37. Gene #14: 'amp_16p11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 14(16P11.2) MUTATED	14	1	3	31	1	0	6	8	20	16	15	5	1
AMP PEAK 14(16P11.2) WILD-TYPE	60	0	25	102	7	1	15	1	39	24	30	12	1

Figure S37. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_16p11.2' versus 'PATHOLOGY_N_STAGE'

P value = 6e-04 (Fisher's exact test), Q value = 0.01

Table S38. Gene #14: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 14(16P11.2) MUTATED	55	37	33
AMP PEAK 14(16P11.2) WILD-TYPE	205	68	49

Figure S38. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00282 (Fisher's exact test), Q value = 0.028

Table S39. Gene #14: 'amp_16p11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 14(16P11.2) MUTATED	115	7
AMP PEAK 14(16P11.2) WILD-TYPE	267	53

Figure S39. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_16p11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00018 (Wilcoxon-test), Q value = 0.0045

Table S40. Gene #14: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 14(16P11.2) MUTATED	119	3.2 (6.2)
AMP PEAK 14(16P11.2) WILD-TYPE	302	1.6 (3.5)

Figure S40. Get High-res Image Gene #14: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16q12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00034 (Fisher's exact test), Q value = 0.0073

Table S41. Gene #15: 'amp_16q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 15(16Q12.1) MUTATED	14	1	3	24	1	0	6	8	20	14	11	4	1
AMP PEAK 15(16Q12.1) WILD-TYPE	60	0	25	109	7	1	15	1	39	26	34	13	1

Figure S41. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_16q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00118 (Fisher's exact test), Q value = 0.015

Table S42. Gene #15: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 15(16Q12.1) MUTATED	48	35	28
AMP PEAK 15(16Q12.1) WILD-TYPE	212	70	54

Figure S42. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00352 (Fisher's exact test), Q value = 0.032

Table S43. Gene #15: 'amp_16q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 15(16Q12.1) MUTATED	103	6
AMP PEAK 15(16Q12.1) WILD-TYPE	279	54

Figure S43. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_16q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5e-04 (Wilcoxon-test), Q value = 0.0093

Table S44. Gene #15: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 15(16Q12.1) MUTATED	106	3.2 (6.2)
AMP PEAK 15(16Q12.1) WILD-TYPE	315	1.7 (3.6)

Figure S44. Get High-res Image Gene #15: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_17q12' versus 'PATHOLOGY_T_STAGE'

P value = 0.0721 (Fisher's exact test), Q value = 0.25

Table S45. Gene #17: 'amp_17q12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	53
AMP PEAK 17(17Q12) MUTATED	5	13	85	11
AMP PEAK 17(17Q12) WILD-TYPE	6	64	220	42

Figure S45. Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'amp_17q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.0042 (Fisher's exact test), Q value = 0.037

Table S46. Gene #17: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 17(17Q12) MUTATED	70	25
AMP PEAK 17(17Q12) WILD-TYPE	254	39

Figure S46. Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_17q12' versus 'ETHNICITY'

P value = 0.0599 (Fisher's exact test), Q value = 0.21

Table S47. Gene #17: 'amp_17q12' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
AMP PEAK 17(17Q12) MUTATED	3	69
AMP PEAK 17(17Q12) WILD-TYPE	1	196

Figure S47. Get High-res Image Gene #17: 'amp_17q12' versus Clinical Feature #13: 'ETHNICITY'

'amp_17q24.1' versus 'Time to Death'

P value = 0.0282 (logrank test), Q value = 0.13

Table S48. Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
AMP PEAK 18(17Q24.1) MUTATED	103	14	0.1 - 148.0 (23.0)
AMP PEAK 18(17Q24.1) WILD-TYPE	330	85	0.0 - 140.4 (21.1)

Figure S48. Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

'amp_17q24.1' versus 'ETHNICITY'

P value = 0.051 (Fisher's exact test), Q value = 0.19

Table S49. Gene #18: 'amp_17q24.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
AMP PEAK 18(17Q24.1) MUTATED	3	65
AMP PEAK 18(17Q24.1) WILD-TYPE	1	200

Figure S49. Get High-res Image Gene #18: 'amp_17q24.1' versus Clinical Feature #13: 'ETHNICITY'

'amp_19p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0487 (Fisher's exact test), Q value = 0.19

Table S50. Gene #19: 'amp_19p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 19(19P13.2) MUTATED	38	26	11
AMP PEAK 19(19P13.2) WILD-TYPE	222	79	71

Figure S50. Get High-res Image Gene #19: 'amp_19p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20p12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00283 (Fisher's exact test), Q value = 0.028

Table S51. Gene #21: 'amp_20p12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 21(20P12.1) MUTATED	38	1	10	54	3	0	8	8	21	17	32	9	1
AMP PEAK 21(20P12.1) WILD-TYPE	36	0	18	79	5	1	13	1	38	23	13	8	1

Figure S51. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20p12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00089 (Fisher's exact test), Q value = 0.013

Table S52. Gene #21: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 21(20P12.1) MUTATED	137	42
AMP PEAK 21(20P12.1) WILD-TYPE	187	22

Figure S52. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0361 (Fisher's exact test), Q value = 0.16

Table S53. Gene #21: 'amp_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 21(20P12.1) MUTATED	186	20
AMP PEAK 21(20P12.1) WILD-TYPE	196	40

Figure S53. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20p12.1' versus 'RESIDUAL_TUMOR'

P value = 0.0466 (Fisher's exact test), Q value = 0.19

Table S54. Gene #21: 'amp_20p12.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
AMP PEAK 21(20P12.1) MUTATED	145	2	18	11
AMP PEAK 21(20P12.1) WILD-TYPE	174	1	7	14

Figure S54. Get High-res Image Gene #21: 'amp_20p12.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_20p11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.00238 (Fisher's exact test), Q value = 0.025

Table S55. Gene #22: 'amp_20p11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 22(20P11.21) MUTATED	43	1	14	67	3	0	9	9	29	21	36	11	1
AMP PEAK 22(20P11.21) WILD-TYPE	31	0	14	66	5	1	12	0	30	19	9	6	1

Figure S55. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20p11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.000848 (Fisher's exact test), Q value = 0.013

Table S56. Gene #22: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 22(20P11.21) MUTATED	168	48
AMP PEAK 22(20P11.21) WILD-TYPE	156	16

Figure S56. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p11.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00119 (Fisher's exact test), Q value = 0.015

Table S57. Gene #22: 'amp_20p11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 22(20P11.21) MUTATED	227	22
AMP PEAK 22(20P11.21) WILD-TYPE	155	38

Figure S57. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20p11.21' versus 'RESIDUAL_TUMOR'

P value = 0.047 (Fisher's exact test), Q value = 0.19

Table S58. Gene #22: 'amp_20p11.21' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
AMP PEAK 22(20P11.21) MUTATED	173	2	20	12
AMP PEAK 22(20P11.21) WILD-TYPE	146	1	5	13

Figure S58. Get High-res Image Gene #22: 'amp_20p11.21' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_20q11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0131 (Fisher's exact test), Q value = 0.079

Table S59. Gene #23: 'amp_20q11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 23(20Q11.21) MUTATED	53	1	16	86	3	1	15	9	43	31	39	15	1
AMP PEAK 23(20Q11.21) WILD-TYPE	21	0	12	47	5	0	6	0	16	9	6	2	1

Figure S59. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_N_STAGE'

P value = 0.00859 (Fisher's exact test), Q value = 0.06

Table S60. Gene #23: 'amp_20q11.21' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 23(20Q11.21) MUTATED	172	85	63
AMP PEAK 23(20Q11.21) WILD-TYPE	88	20	19

Figure S60. 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 = 0.0059 (Fisher's exact test), Q value = 0.046

Table S61. Gene #23: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 23(20Q11.21) MUTATED	224	55
AMP PEAK 23(20Q11.21) WILD-TYPE	100	9

Figure S61. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 3.05e-07 (Fisher's exact test), Q value = 3.9e-05

Table S62. Gene #23: 'amp_20q11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 23(20Q11.21) MUTATED	291	25
AMP PEAK 23(20Q11.21) WILD-TYPE	91	35

Figure S62. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q11.21' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0216 (Wilcoxon-test), Q value = 0.11

Table S63. Gene #23: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 23(20Q11.21) MUTATED	305	2.3 (4.8)
AMP PEAK 23(20Q11.21) WILD-TYPE	116	1.6 (3.5)

Figure S63. Get High-res Image Gene #23: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q12' versus 'PATHOLOGIC_STAGE'

P value = 0.00586 (Fisher's exact test), Q value = 0.046

Table S64. Gene #24: 'amp_20q12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 24(20Q12) MUTATED	53	1	16	87	3	1	14	9	43	31	39	16	1
AMP PEAK 24(20Q12) WILD-TYPE	21	0	12	46	5	0	7	0	16	9	6	1	1

Figure S64. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q12' versus 'PATHOLOGY_N_STAGE'

P value = 0.011 (Fisher's exact test), Q value = 0.071

Table S65. Gene #24: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 24(20Q12) MUTATED	173	85	63
AMP PEAK 24(20Q12) WILD-TYPE	87	20	19

Figure S65. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00215 (Fisher's exact test), Q value = 0.024

Table S66. Gene #24: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 24(20Q12) MUTATED	224	56
AMP PEAK 24(20Q12) WILD-TYPE	100	8

Figure S66. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q12' versus 'HISTOLOGICAL_TYPE'

P value = 3.88e-08 (Fisher's exact test), Q value = 8.7e-06

Table S67. Gene #24: 'amp_20q12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 24(20Q12) MUTATED	293	24
AMP PEAK 24(20Q12) WILD-TYPE	89	36

Figure S67. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0226 (Wilcoxon-test), Q value = 0.11

Table S68. Gene #24: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 24(20Q12) MUTATED	305	2.3 (4.7)
AMP PEAK 24(20Q12) WILD-TYPE	116	1.6 (3.6)

Figure S68. Get High-res Image Gene #24: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q13.12' versus 'PATHOLOGIC_STAGE'

P value = 0.00299 (Fisher's exact test), Q value = 0.029

Table S69. Gene #25: 'amp_20q13.12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
AMP PEAK 25(20Q13.12) MUTATED	52	1	17	87	3	1	14	9	43	32	40	16	1
AMP PEAK 25(20Q13.12) WILD-TYPE	22	0	11	46	5	0	7	0	16	8	5	1	1

Figure S69. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_N_STAGE'

P value = 0.0058 (Fisher's exact test), Q value = 0.046

Table S70. Gene #25: 'amp_20q13.12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
AMP PEAK 25(20Q13.12) MUTATED	173	85	65
AMP PEAK 25(20Q13.12) WILD-TYPE	87	20	17

Figure S70. 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 = 0.00109 (Fisher's exact test), Q value = 0.015

Table S71. Gene #25: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
AMP PEAK 25(20Q13.12) MUTATED	225	57
AMP PEAK 25(20Q13.12) WILD-TYPE	99	7

Figure S71. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q13.12' versus 'HISTOLOGICAL_TYPE'

P value = 9.65e-08 (Fisher's exact test), Q value = 1.7e-05

Table S72. Gene #25: 'amp_20q13.12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
AMP PEAK 25(20Q13.12) MUTATED	294	25
AMP PEAK 25(20Q13.12) WILD-TYPE	88	35

Figure S72. Get High-res Image Gene #25: 'amp_20q13.12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q13.12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00747 (Wilcoxon-test), Q value = 0.055

Table S73. Gene #25: 'amp_20q13.12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
AMP PEAK 25(20Q13.12) MUTATED	307	2.3 (4.8)
AMP PEAK 25(20Q13.12) WILD-TYPE	114	1.5 (3.4)

Figure S73. 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 = 0.0231 (logrank test), Q value = 0.11

Table S74. Gene #26: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 1(1P36.11) MUTATED	161	44	0.1 - 139.2 (19.1)
DEL PEAK 1(1P36.11) WILD-TYPE	272	55	0.0 - 148.0 (22.0)

Figure S74. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

'del_1p36.11' versus 'PATHOLOGIC_STAGE'

P value = 0.00047 (Fisher's exact test), Q value = 0.0092

Table S75. Gene #26: 'del_1p36.11' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 1(1P36.11) MUTATED	21	0	5	46	1	1	8	4	19	17	30	10	0
DEL PEAK 1(1P36.11) WILD-TYPE	53	1	23	87	7	0	13	5	40	23	15	7	2

Figure S75. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p36.11' versus 'PATHOLOGY_N_STAGE'

P value = 0.0151 (Fisher's exact test), Q value = 0.088

Table S76. Gene #26: 'del_1p36.11' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 1(1P36.11) MUTATED	83	43	40
DEL PEAK 1(1P36.11) WILD-TYPE	177	62	42

Figure S76. 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 = 1.68e-05 (Fisher's exact test), Q value = 8e-04

Table S77. Gene #26: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 1(1P36.11) MUTATED	107	40
DEL PEAK 1(1P36.11) WILD-TYPE	217	24

Figure S77. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p36.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.000884 (Fisher's exact test), Q value = 0.013

Table S78. Gene #26: 'del_1p36.11' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 1(1P36.11) MUTATED	154	11
DEL PEAK 1(1P36.11) WILD-TYPE	228	49

Figure S78. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_1p36.11' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00355 (Wilcoxon-test), Q value = 0.032

Table S79. Gene #26: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 1(1P36.11) MUTATED	154	2.9 (5.8)
DEL PEAK 1(1P36.11) WILD-TYPE	267	1.6 (3.4)

Figure S79. Get High-res Image Gene #26: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p33' versus 'Time to Death'

P value = 0.00112 (logrank test), Q value = 0.015

Table S80. Gene #27: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 2(1P33) MUTATED	118	37	0.0 - 92.8 (18.0)
DEL PEAK 2(1P33) WILD-TYPE	315	62	0.0 - 148.0 (22.1)

Figure S80. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

'del_1p33' versus 'PATHOLOGIC_STAGE'

P value = 0.0141 (Fisher's exact test), Q value = 0.085

Table S81. Gene #27: 'del_1p33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 2(1P33) MUTATED	12	0	5	35	0	0	6	3	16	14	23	4	0
DEL PEAK 2(1P33) WILD-TYPE	62	1	23	98	8	1	15	6	43	26	22	13	2

Figure S81. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0262 (Fisher's exact test), Q value = 0.13

Table S82. Gene #27: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 2(1P33) MUTATED	59	33	30
DEL PEAK 2(1P33) WILD-TYPE	201	72	52

Figure S82. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p33' versus 'PATHOLOGY_M_STAGE'

P value = 0.00514 (Fisher's exact test), Q value = 0.043

Table S83. Gene #27: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 2(1P33) MUTATED	78	27
DEL PEAK 2(1P33) WILD-TYPE	246	37

Figure S83. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0198 (Fisher's exact test), Q value = 0.1

Table S84. Gene #27: 'del_1p33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 2(1P33) MUTATED	112	9
DEL PEAK 2(1P33) WILD-TYPE	270	51

Figure S84. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_1p33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0069 (Wilcoxon-test), Q value = 0.053

Table S85. Gene #27: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 2(1P33) MUTATED	114	3.1 (6.4)
DEL PEAK 2(1P33) WILD-TYPE	307	1.7 (3.4)

Figure S85. Get High-res Image Gene #27: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p13.1' versus 'Time to Death'

P value = 0.0482 (logrank test), Q value = 0.19

Table S86. Gene #28: 'del_1p13.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 3(1P13.1) MUTATED	113	31	0.2 - 131.5 (17.9)
DEL PEAK 3(1P13.1) WILD-TYPE	320	68	0.0 - 148.0 (22.1)

Figure S86. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #1: 'Time to Death'

'del_1p13.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00587 (Fisher's exact test), Q value = 0.046

Table S87. Gene #28: 'del_1p13.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 3(1P13.1) MUTATED	12	0	5	32	0	0	5	3	16	13	24	3	0
DEL PEAK 3(1P13.1) WILD-TYPE	62	1	23	101	8	1	16	6	43	27	21	14	2

Figure S87. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p13.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00843 (Fisher's exact test), Q value = 0.06

Table S88. Gene #28: 'del_1p13.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 3(1P13.1) MUTATED	55	31	31
DEL PEAK 3(1P13.1) WILD-TYPE	205	74	51

Figure S88. 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 = 0.00285 (Fisher's exact test), Q value = 0.028

Table S89. Gene #28: 'del_1p13.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 3(1P13.1) MUTATED	75	27
DEL PEAK 3(1P13.1) WILD-TYPE	249	37

Figure S89. 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 = 0.000838 (Wilcoxon-test), Q value = 0.013

Table S90. Gene #28: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 3(1P13.1) MUTATED	107	3.0 (4.7)
DEL PEAK 3(1P13.1) WILD-TYPE	314	1.8 (4.3)

Figure S90. Get High-res Image Gene #28: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_2q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00947 (Wilcoxon-test), Q value = 0.063

Table S91. Gene #31: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 6(2Q22.1) MUTATED	22	2.9 (3.2)
DEL PEAK 6(2Q22.1) WILD-TYPE	399	2.0 (4.5)

Figure S91. Get High-res Image Gene #31: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_2q22.1' versus 'RACE'

P value = 0.00542 (Fisher's exact test), Q value = 0.045

Table S92. 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	58	211
DEL PEAK 6(2Q22.1) MUTATED	1	2	1	9
DEL PEAK 6(2Q22.1) WILD-TYPE	0	9	57	202

Figure S92. Get High-res Image Gene #31: 'del_2q22.1' versus Clinical Feature #12: 'RACE'

'del_3p26.2' versus 'Time to Death'

P value = 0.054 (logrank test), Q value = 0.2

Table S93. Gene #32: 'del_3p26.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 7(3P26.2) MUTATED	69	17	0.0 - 85.0 (14.5)
DEL PEAK 7(3P26.2) WILD-TYPE	364	82	0.0 - 148.0 (23.0)

Figure S93. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #1: 'Time to Death'

'del_3p26.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0405 (Fisher's exact test), Q value = 0.17

Table S94. Gene #32: 'del_3p26.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 7(3P26.2) MUTATED	6	0	1	20	0	0	4	2	11	8	15	4	0
DEL PEAK 7(3P26.2) WILD-TYPE	68	1	27	113	8	1	17	7	48	32	30	13	2

Figure S94. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_3p26.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0214 (Fisher's exact test), Q value = 0.11

Table S95. Gene #32: 'del_3p26.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 7(3P26.2) MUTATED	31	21	19
DEL PEAK 7(3P26.2) WILD-TYPE	229	84	63

Figure S95. 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 = 0.00236 (Fisher's exact test), Q value = 0.025

Table S96. Gene #32: 'del_3p26.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 7(3P26.2) MUTATED	43	19
DEL PEAK 7(3P26.2) WILD-TYPE	281	45

Figure S96. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_3p26.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0363 (Fisher's exact test), Q value = 0.16

Table S97. Gene #32: 'del_3p26.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 7(3P26.2) MUTATED	67	4
DEL PEAK 7(3P26.2) WILD-TYPE	315	56

Figure S97. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_3p26.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00913 (Wilcoxon-test), Q value = 0.062

Table S98. Gene #32: 'del_3p26.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 7(3P26.2) MUTATED	66	3.1 (5.7)
DEL PEAK 7(3P26.2) WILD-TYPE	355	1.9 (4.2)

Figure S98. Get High-res Image Gene #32: 'del_3p26.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_3p14.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0548 (Fisher's exact test), Q value = 0.2

Table S99. Gene #33: 'del_3p14.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 8(3P14.2) MUTATED	56	18
DEL PEAK 8(3P14.2) WILD-TYPE	268	46

Figure S99. 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 = 0.0267 (Wilcoxon-test), Q value = 0.13

Table S100. Gene #33: 'del_3p14.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 8(3P14.2) MUTATED	83	3.3 (6.0)
DEL PEAK 8(3P14.2) WILD-TYPE	338	1.8 (3.9)

Figure S100. 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 = 0.0177 (logrank test), Q value = 0.097

Table S101. Gene #35: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 10(4P16.2) MUTATED	130	37	0.2 - 91.8 (21.4)
DEL PEAK 10(4P16.2) WILD-TYPE	303	62	0.0 - 148.0 (22.0)

Figure S101. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

'del_4p16.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00086 (Fisher's exact test), Q value = 0.013

Table S102. Gene #35: 'del_4p16.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 10(4P16.2) MUTATED	16	0	6	32	2	0	5	5	16	16	27	7	0
DEL PEAK 10(4P16.2) WILD-TYPE	58	1	22	101	6	1	16	4	43	24	18	10	2

Figure S102. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_4p16.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00069 (Fisher's exact test), Q value = 0.011

Table S103. Gene #35: 'del_4p16.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 10(4P16.2) MUTATED	61	39	36
DEL PEAK 10(4P16.2) WILD-TYPE	199	66	46

Figure S103. 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 = 2.12e-05 (Fisher's exact test), Q value = 0.00091

Table S104. Gene #35: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 10(4P16.2) MUTATED	82	34
DEL PEAK 10(4P16.2) WILD-TYPE	242	30

Figure S104. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4p16.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.034 (Fisher's exact test), Q value = 0.15

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

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 10(4P16.2) MUTATED	124	11
DEL PEAK 10(4P16.2) WILD-TYPE	258	49

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

'del_4p16.2' versus 'RESIDUAL_TUMOR'

P value = 0.0572 (Fisher's exact test), Q value = 0.21

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

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
DEL PEAK 10(4P16.2) MUTATED	96	0	13	5
DEL PEAK 10(4P16.2) WILD-TYPE	223	3	12	20

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

'del_4p16.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000195 (Wilcoxon-test), Q value = 0.0047

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

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 10(4P16.2) MUTATED	130	2.9 (4.7)
DEL PEAK 10(4P16.2) WILD-TYPE	291	1.7 (4.3)

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

'del_4p16.2' versus 'ETHNICITY'

P value = 0.0722 (Fisher's exact test), Q value = 0.25

Table S108. Gene #35: 'del_4p16.2' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
DEL PEAK 10(4P16.2) MUTATED	3	74
DEL PEAK 10(4P16.2) WILD-TYPE	1	191

Figure S108. Get High-res Image Gene #35: 'del_4p16.2' versus Clinical Feature #13: 'ETHNICITY'

'del_4q22.1' versus 'Time to Death'

P value = 0.0228 (logrank test), Q value = 0.11

Table S109. Gene #36: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 11(4Q22.1) MUTATED	144	41	0.0 - 148.0 (21.4)
DEL PEAK 11(4Q22.1) WILD-TYPE	289	58	0.0 - 140.4 (22.0)

Figure S109. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

'del_4q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0115 (Fisher's exact test), Q value = 0.072

Table S110. Gene #36: 'del_4q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 11(4Q22.1) MUTATED	14	0	8	39	2	0	4	5	24	19	22	6	1
DEL PEAK 11(4Q22.1) WILD-TYPE	60	1	20	94	6	1	17	4	35	21	23	11	1

Figure S110. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_4q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00039 (Fisher's exact test), Q value = 0.0081

Table S111. Gene #36: 'del_4q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 11(4Q22.1) MUTATED	67	44	37
DEL PEAK 11(4Q22.1) WILD-TYPE	193	61	45

Figure S111. 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 = 0.0188 (Fisher's exact test), Q value = 0.1

Table S112. Gene #36: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 11(4Q22.1) MUTATED	96	29
DEL PEAK 11(4Q22.1) WILD-TYPE	228	35

Figure S112. Get High-res Image Gene #36: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00787 (Fisher's exact test), Q value = 0.058

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

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 11(4Q22.1) MUTATED	136	11
DEL PEAK 11(4Q22.1) WILD-TYPE	246	49

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

'del_4q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000175 (Wilcoxon-test), Q value = 0.0045

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

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 11(4Q22.1) MUTATED	140	2.9 (4.5)
DEL PEAK 11(4Q22.1) WILD-TYPE	281	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 'PATHOLOGIC_STAGE'

P value = 0.0498 (Fisher's exact test), Q value = 0.19

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

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 12(4Q35.1) MUTATED	17	0	7	44	1	0	7	5	22	18	24	7	1
DEL PEAK 12(4Q35.1) WILD-TYPE	57	1	21	89	7	1	14	4	37	22	21	10	1

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

'del_4q35.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00263 (Fisher's exact test), Q value = 0.027

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

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 12(4Q35.1) MUTATED	74	44	38
DEL PEAK 12(4Q35.1) WILD-TYPE	186	61	44

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 = 0.00968 (Fisher's exact test), Q value = 0.064

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

nPatients	0	1
ALL	324	64
DEL PEAK 12(4Q35.1) MUTATED	105	32
DEL PEAK 12(4Q35.1) WILD-TYPE	219	32

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

'del_4q35.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000647 (Wilcoxon-test), Q value = 0.011

Table S118. Gene #37: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 12(4Q35.1) MUTATED	148	2.7 (4.3)
DEL PEAK 12(4Q35.1) WILD-TYPE	273	1.8 (4.5)

Figure S118. Get High-res Image Gene #37: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.008 (Fisher's exact test), Q value = 0.058

Table S119. Gene #38: 'del_5q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 13(5Q12.1) MUTATED	17	0	4	19	1	0	4	5	14	15	13	8	1
DEL PEAK 13(5Q12.1) WILD-TYPE	57	1	24	114	7	1	17	4	45	25	32	9	1

Figure S119. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0159 (Fisher's exact test), Q value = 0.091

Table S120. Gene #38: 'del_5q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 13(5Q12.1) MUTATED	49	29	27
DEL PEAK 13(5Q12.1) WILD-TYPE	211	76	55

Figure S120. 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 = 0.0213 (Fisher's exact test), Q value = 0.11

Table S121. Gene #38: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 13(5Q12.1) MUTATED	66	22
DEL PEAK 13(5Q12.1) WILD-TYPE	258	42

Figure S121. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0493 (Fisher's exact test), Q value = 0.19

Table S122. Gene #38: 'del_5q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 13(5Q12.1) MUTATED	97	8
DEL PEAK 13(5Q12.1) WILD-TYPE	285	52

Figure S122. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_5q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00662 (Wilcoxon-test), Q value = 0.052

Table S123. Gene #38: 'del_5q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 13(5Q12.1) MUTATED	101	2.9 (5.0)
DEL PEAK 13(5Q12.1) WILD-TYPE	320	1.8 (4.2)

Figure S123. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q12.1' versus 'ETHNICITY'

P value = 0.051 (Fisher's exact test), Q value = 0.19

Table S124. Gene #38: 'del_5q12.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
DEL PEAK 13(5Q12.1) MUTATED	3	65
DEL PEAK 13(5Q12.1) WILD-TYPE	1	200

Figure S124. Get High-res Image Gene #38: 'del_5q12.1' versus Clinical Feature #13: 'ETHNICITY'

'del_5q21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00013 (Fisher's exact test), Q value = 0.0039

Table S125. Gene #39: 'del_5q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 14(5Q21.1) MUTATED	18	0	5	26	0	0	4	7	18	17	17	8	2
DEL PEAK 14(5Q21.1) WILD-TYPE	56	1	23	107	8	1	17	2	41	23	28	9	0

Figure S125. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00187 (Fisher's exact test), Q value = 0.022

Table S126. Gene #39: 'del_5q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 14(5Q21.1) MUTATED	57	37	32
DEL PEAK 14(5Q21.1) WILD-TYPE	203	68	50

Figure S126. 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 = 0.0089 (Fisher's exact test), Q value = 0.061

Table S127. Gene #39: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 14(5Q21.1) MUTATED	81	27
DEL PEAK 14(5Q21.1) WILD-TYPE	243	37

Figure S127. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000572 (Wilcoxon-test), Q value = 0.01

Table S128. Gene #39: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 14(5Q21.1) MUTATED	121	2.9 (4.9)
DEL PEAK 14(5Q21.1) WILD-TYPE	300	1.8 (4.2)

Figure S128. Get High-res Image Gene #39: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q22.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0153 (Fisher's exact test), Q value = 0.089

Table S129. Gene #40: 'del_5q22.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 15(5Q22.2) MUTATED	19	0	6	29	0	0	5	6	16	15	19	8	1
DEL PEAK 15(5Q22.2) WILD-TYPE	55	1	22	104	8	1	16	3	43	25	26	9	1

Figure S129. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q22.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0469 (Fisher's exact test), Q value = 0.19

Table S130. Gene #40: 'del_5q22.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 15(5Q22.2) MUTATED	64	34	31
DEL PEAK 15(5Q22.2) WILD-TYPE	196	71	51

Figure S130. 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 = 0.0034 (Fisher's exact test), Q value = 0.031

Table S131. Gene #40: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 15(5Q22.2) MUTATED	80	28
DEL PEAK 15(5Q22.2) WILD-TYPE	244	36

Figure S131. Get High-res Image Gene #40: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q22.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.02 (Wilcoxon-test), Q value = 0.1

Table S132. Gene #40: 'del_5q22.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 15(5Q22.2) MUTATED	122	2.7 (4.8)
DEL PEAK 15(5Q22.2) WILD-TYPE	299	1.8 (4.3)

Figure S132. 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 = 0.0526 (Wilcoxon-test), Q value = 0.2

Table S133. Gene #41: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 16(6P25.3) MUTATED	55	69.8 (12.7)
DEL PEAK 16(6P25.3) WILD-TYPE	390	66.6 (13.0)

Figure S133. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'GENDER'

P value = 0.0601 (Fisher's exact test), Q value = 0.21

Table S134. Gene #41: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	211	236
DEL PEAK 16(6P25.3) MUTATED	19	36
DEL PEAK 16(6P25.3) WILD-TYPE	192	200

Figure S134. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

'del_6p25.3' versus 'RACE'

P value = 0.0458 (Fisher's exact test), Q value = 0.19

Table S135. 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	58	211
DEL PEAK 16(6P25.3) MUTATED	0	3	2	26
DEL PEAK 16(6P25.3) WILD-TYPE	1	8	56	185

Figure S135. Get High-res Image Gene #41: 'del_6p25.3' versus Clinical Feature #12: 'RACE'

'del_6q26' versus 'Time to Death'

P value = 0.0233 (logrank test), Q value = 0.11

Table S136. Gene #42: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 17(6Q26) MUTATED	58	19	0.5 - 131.5 (17.9)
DEL PEAK 17(6Q26) WILD-TYPE	375	80	0.0 - 148.0 (22.1)

Figure S136. 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 = 0.028

Table S137. Gene #42: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 17(6Q26) MUTATED	26	14	21
DEL PEAK 17(6Q26) WILD-TYPE	234	91	61

Figure S137. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_6q26' versus 'PATHOLOGY_M_STAGE'

P value = 0.0404 (Fisher's exact test), Q value = 0.17

Table S138. Gene #42: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 17(6Q26) MUTATED	37	14
DEL PEAK 17(6Q26) WILD-TYPE	287	50

Figure S138. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_6q26' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00107 (Wilcoxon-test), Q value = 0.015

Table S139. Gene #42: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 17(6Q26) MUTATED	57	3.5 (4.6)
DEL PEAK 17(6Q26) WILD-TYPE	364	1.9 (4.4)

Figure S139. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_6q26' versus 'RACE'

P value = 0.0461 (Fisher's exact test), Q value = 0.19

Table S140. Gene #42: 'del_6q26' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	58	211
DEL PEAK 17(6Q26) MUTATED	1	3	5	26
DEL PEAK 17(6Q26) WILD-TYPE	0	8	53	185

Figure S140. Get High-res Image Gene #42: 'del_6q26' versus Clinical Feature #12: 'RACE'

'del_7q31.1' versus 'ETHNICITY'

P value = 0.00719 (Fisher's exact test), Q value = 0.055

Table S141. Gene #43: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
DEL PEAK 18(7Q31.1) MUTATED	2	8
DEL PEAK 18(7Q31.1) WILD-TYPE	2	257

Figure S141. Get High-res Image Gene #43: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

'del_8p23.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00026 (Fisher's exact test), Q value = 0.0057

Table S142. Gene #44: 'del_8p23.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 19(8P23.3) MUTATED	25	0	8	41	2	0	9	5	29	24	30	10	1
DEL PEAK 19(8P23.3) WILD-TYPE	49	1	20	92	6	1	12	4	30	16	15	7	1

Figure S142. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_8p23.3' versus 'PATHOLOGY_N_STAGE'

P value = 2e-05 (Fisher's exact test), Q value = 9e-04

Table S143. Gene #44: 'del_8p23.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 19(8P23.3) MUTATED	86	52	49
DEL PEAK 19(8P23.3) WILD-TYPE	174	53	33

Figure S143. 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 = 0.00017 (Fisher's exact test), Q value = 0.0045

Table S144. Gene #44: 'del_8p23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 19(8P23.3) MUTATED	124	41
DEL PEAK 19(8P23.3) WILD-TYPE	200	23

Figure S144. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p23.3' versus 'GENDER'

P value = 0.0212 (Fisher's exact test), Q value = 0.11

Table S145. Gene #44: 'del_8p23.3' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	211	236
DEL PEAK 19(8P23.3) MUTATED	76	111
DEL PEAK 19(8P23.3) WILD-TYPE	135	125

Figure S145. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #7: 'GENDER'

'del_8p23.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0114 (Fisher's exact test), Q value = 0.072

Table S146. Gene #44: 'del_8p23.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 19(8P23.3) MUTATED	168	16
DEL PEAK 19(8P23.3) WILD-TYPE	214	44

Figure S146. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_8p23.3' versus 'RESIDUAL_TUMOR'

P value = 0.0586 (Fisher's exact test), Q value = 0.21

Table S147. Gene #44: 'del_8p23.3' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
DEL PEAK 19(8P23.3) MUTATED	127	1	15	6
DEL PEAK 19(8P23.3) WILD-TYPE	192	2	10	19

Figure S147. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_8p23.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 3.2e-05 (Wilcoxon-test), Q value = 0.0012

Table S148. Gene #44: 'del_8p23.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 19(8P23.3) MUTATED	180	2.9 (5.5)
DEL PEAK 19(8P23.3) WILD-TYPE	241	1.5 (3.3)

Figure S148. Get High-res Image Gene #44: 'del_8p23.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8p22' versus 'Time to Death'

P value = 0.0528 (logrank test), Q value = 0.2

Table S149. Gene #45: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 20(8P22) MUTATED	198	54	0.0 - 148.0 (23.6)
DEL PEAK 20(8P22) WILD-TYPE	235	45	0.0 - 139.2 (20.2)

Figure S149. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

'del_8p22' versus 'YEARS_TO_BIRTH'

P value = 0.0223 (Wilcoxon-test), Q value = 0.11

Table S150. Gene #45: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 20(8P22) MUTATED	201	65.7 (12.2)
DEL PEAK 20(8P22) WILD-TYPE	244	68.0 (13.6)

Figure S150. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p22' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 5e-04

Table S151. Gene #45: 'del_8p22' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 20(8P22) MUTATED	25	0	9	42	2	0	10	6	32	26	31	14	1
DEL PEAK 20(8P22) WILD-TYPE	49	1	19	91	6	1	11	3	27	14	14	3	1

Figure S151. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_8p22' versus 'PATHOLOGY_T_STAGE'

P value = 0.0425 (Fisher's exact test), Q value = 0.17

Table S152. Gene #45: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	53
DEL PEAK 20(8P22) MUTATED	1	30	144	26
DEL PEAK 20(8P22) WILD-TYPE	10	47	161	27

Figure S152. 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 = 5e-04

Table S153. Gene #45: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 20(8P22) MUTATED	90	56	55
DEL PEAK 20(8P22) WILD-TYPE	170	49	27

Figure S153. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_8p22' versus 'PATHOLOGY_M_STAGE'

P value = 7.66e-06 (Fisher's exact test), Q value = 0.00049

Table S154. Gene #45: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 20(8P22) MUTATED	132	46
DEL PEAK 20(8P22) WILD-TYPE	192	18

Figure S154. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p22' versus 'GENDER'

P value = 0.0703 (Fisher's exact test), Q value = 0.25

Table S155. Gene #45: 'del_8p22' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	211	236
DEL PEAK 20(8P22) MUTATED	85	116
DEL PEAK 20(8P22) WILD-TYPE	126	120

Figure S155. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #7: 'GENDER'

'del_8p22' versus 'HISTOLOGICAL_TYPE'

P value = 0.00311 (Fisher's exact test), Q value = 0.029

Table S156. Gene #45: 'del_8p22' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 20(8P22) MUTATED	182	16
DEL PEAK 20(8P22) WILD-TYPE	200	44

Figure S156. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_8p22' versus 'RESIDUAL_TUMOR'

P value = 0.0289 (Fisher's exact test), Q value = 0.14

Table S157. Gene #45: 'del_8p22' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
DEL PEAK 20(8P22) MUTATED	139	1	16	6
DEL PEAK 20(8P22) WILD-TYPE	180	2	9	19

Figure S157. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_8p22' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.51e-07 (Wilcoxon-test), Q value = 5.7e-05

Table S158. Gene #45: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 20(8P22) MUTATED	194	3.0 (5.4)
DEL PEAK 20(8P22) WILD-TYPE	227	1.4 (3.3)

Figure S158. Get High-res Image Gene #45: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8q11.1' versus 'RACE'

P value = 0.0514 (Fisher's exact test), Q value = 0.19

Table S159. 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	58	211
DEL PEAK 21(8Q11.1) MUTATED	1	0	6	13
DEL PEAK 21(8Q11.1) WILD-TYPE	0	11	52	198

Figure S159. Get High-res Image Gene #46: 'del_8q11.1' versus Clinical Feature #12: 'RACE'

'del_9p21.3' versus 'YEARS_TO_BIRTH'

P value = 0.0718 (Wilcoxon-test), Q value = 0.25

Table S160. Gene #47: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 22(9P21.3) MUTATED	61	64.3 (12.8)
DEL PEAK 22(9P21.3) WILD-TYPE	384	67.4 (13.0)

Figure S160. Get High-res Image Gene #47: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00834 (Fisher's exact test), Q value = 0.059

Table S161. Gene #47: 'del_9p21.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 22(9P21.3) MUTATED	58	2
DEL PEAK 22(9P21.3) WILD-TYPE	324	58

Figure S161. Get High-res Image Gene #47: 'del_9p21.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10p15.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00231 (Fisher's exact test), Q value = 0.025

Table S162. Gene #48: 'del_10p15.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 23(10P15.3) MUTATED	10	0	6	12	0	1	2	3	12	8	16	4	1
DEL PEAK 23(10P15.3) WILD-TYPE	64	1	22	121	8	0	19	6	47	32	29	13	1

Figure S162. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10p15.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00931 (Fisher's exact test), Q value = 0.063

Table S163. Gene #48: 'del_10p15.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 23(10P15.3) MUTATED	33	23	21
DEL PEAK 23(10P15.3) WILD-TYPE	227	82	61

Figure S163. 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 = 0.001 (Fisher's exact test), Q value = 0.014

Table S164. Gene #48: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 23(10P15.3) MUTATED	47	21
DEL PEAK 23(10P15.3) WILD-TYPE	277	43

Figure S164. Get High-res Image Gene #48: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10p15.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00268 (Wilcoxon-test), Q value = 0.028

Table S165. Gene #48: 'del_10p15.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 23(10P15.3) MUTATED	74	3.1 (6.4)
DEL PEAK 23(10P15.3) WILD-TYPE	347	1.9 (3.9)

Figure S165. 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 = 0.0592 (Wilcoxon-test), Q value = 0.21

Table S166. Gene #49: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 24(10Q21.1) MUTATED	96	64.6 (13.2)
DEL PEAK 24(10Q21.1) WILD-TYPE	349	67.6 (12.9)

Figure S166. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00702 (Fisher's exact test), Q value = 0.054

Table S167. Gene #49: 'del_10q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 24(10Q21.1) MUTATED	12	0	6	19	0	1	2	2	14	14	17	5	1
DEL PEAK 24(10Q21.1) WILD-TYPE	62	1	22	114	8	0	19	7	45	26	28	12	1

Figure S167. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0189 (Fisher's exact test), Q value = 0.1

Table S168. Gene #49: 'del_10q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 24(10Q21.1) MUTATED	45	25	26
DEL PEAK 24(10Q21.1) WILD-TYPE	215	80	56

Figure S168. 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 = 0.00468 (Fisher's exact test), Q value = 0.04

Table S169. Gene #49: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 24(10Q21.1) MUTATED	62	23
DEL PEAK 24(10Q21.1) WILD-TYPE	262	41

Figure S169. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0437 (Fisher's exact test), Q value = 0.18

Table S170. Gene #49: 'del_10q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 24(10Q21.1) MUTATED	89	7
DEL PEAK 24(10Q21.1) WILD-TYPE	293	53

Figure S170. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00804 (Wilcoxon-test), Q value = 0.058

Table S171. Gene #49: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 24(10Q21.1) MUTATED	92	2.9 (6.1)
DEL PEAK 24(10Q21.1) WILD-TYPE	329	1.9 (3.8)

Figure S171. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'ETHNICITY'

P value = 0.0411 (Fisher's exact test), Q value = 0.17

Table S172. Gene #49: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	265
DEL PEAK 24(10Q21.1) MUTATED	3	60
DEL PEAK 24(10Q21.1) WILD-TYPE	1	205

Figure S172. Get High-res Image Gene #49: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

'del_10q23.31' versus 'YEARS_TO_BIRTH'

P value = 0.00467 (Wilcoxon-test), Q value = 0.04

Table S173. Gene #50: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 25(10Q23.31) MUTATED	107	63.9 (13.0)
DEL PEAK 25(10Q23.31) WILD-TYPE	338	67.9 (12.9)

Figure S173. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'PATHOLOGIC_STAGE'

P value = 0.00436 (Fisher's exact test), Q value = 0.038

Table S174. Gene #50: 'del_10q23.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 25(10Q23.31) MUTATED	14	1	6	24	0	1	4	5	14	12	17	5	2
DEL PEAK 25(10Q23.31) WILD-TYPE	60	0	22	109	8	0	17	4	45	28	28	12	0

Figure S174. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q23.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0356 (Fisher's exact test), Q value = 0.16

Table S175. Gene #50: 'del_10q23.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 25(10Q23.31) MUTATED	51	30	26
DEL PEAK 25(10Q23.31) WILD-TYPE	209	75	56

Figure S175. 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 = 0.0166 (Fisher's exact test), Q value = 0.094

Table S176. Gene #50: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 25(10Q23.31) MUTATED	72	24
DEL PEAK 25(10Q23.31) WILD-TYPE	252	40

Figure S176. 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 = 0.00736 (Wilcoxon-test), Q value = 0.055

Table S177. Gene #50: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 25(10Q23.31) MUTATED	103	2.5 (3.8)
DEL PEAK 25(10Q23.31) WILD-TYPE	318	2.0 (4.6)

Figure S177. Get High-res Image Gene #50: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q25.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0498 (Fisher's exact test), Q value = 0.19

Table S178. Gene #51: 'del_10q25.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 26(10Q25.2) MUTATED	11	0	7	26	0	1	6	3	14	12	18	5	1
DEL PEAK 26(10Q25.2) WILD-TYPE	63	1	21	107	8	0	15	6	45	28	27	12	1

Figure S178. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q25.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00987 (Fisher's exact test), Q value = 0.065

Table S179. Gene #51: 'del_10q25.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 26(10Q25.2) MUTATED	49	31	27
DEL PEAK 26(10Q25.2) WILD-TYPE	211	74	55

Figure S179. 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 = 0.0171 (Fisher's exact test), Q value = 0.095

Table S180. Gene #51: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 26(10Q25.2) MUTATED	73	24
DEL PEAK 26(10Q25.2) WILD-TYPE	251	40

Figure S180. Get High-res Image Gene #51: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q25.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00543 (Wilcoxon-test), Q value = 0.045

Table S181. Gene #51: 'del_10q25.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 26(10Q25.2) MUTATED	103	2.5 (3.9)
DEL PEAK 26(10Q25.2) WILD-TYPE	318	1.9 (4.6)

Figure S181. 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 = 0.017 (logrank test), Q value = 0.095

Table S182. Gene #52: 'del_12p13.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 27(12P13.2) MUTATED	59	19	0.1 - 78.1 (17.0)
DEL PEAK 27(12P13.2) WILD-TYPE	374	80	0.0 - 148.0 (22.0)

Figure S182. 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 = 0.0573 (Fisher's exact test), Q value = 0.21

Table S183. Gene #52: 'del_12p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 27(12P13.2) MUTATED	26	19	14
DEL PEAK 27(12P13.2) WILD-TYPE	234	86	68

Figure S183. 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 = 0.0586 (Fisher's exact test), Q value = 0.21

Table S184. Gene #52: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 27(12P13.2) MUTATED	35	13
DEL PEAK 27(12P13.2) WILD-TYPE	289	51

Figure S184. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_12p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0127 (Fisher's exact test), Q value = 0.078

Table S185. Gene #52: 'del_12p13.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 27(12P13.2) MUTATED	56	2
DEL PEAK 27(12P13.2) WILD-TYPE	326	58

Figure S185. Get High-res Image Gene #52: 'del_12p13.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_12p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0675 (Wilcoxon-test), Q value = 0.24

Table S186. Gene #52: 'del_12p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 27(12P13.2) MUTATED	55	2.3 (3.5)
DEL PEAK 27(12P13.2) WILD-TYPE	366	2.1 (4.6)

Figure S186. 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 = 0.0338 (Fisher's exact test), Q value = 0.15

Table S187. Gene #53: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 28(13Q14.13) MUTATED	11	1	7
DEL PEAK 28(13Q14.13) WILD-TYPE	249	104	75

Figure S187. Get High-res Image Gene #53: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_13q14.13' versus 'RACE'

P value = 0.0341 (Fisher's exact test), Q value = 0.15

Table S188. 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	58	211
DEL PEAK 28(13Q14.13) MUTATED	1	1	3	8
DEL PEAK 28(13Q14.13) WILD-TYPE	0	10	55	203

Figure S188. Get High-res Image Gene #53: 'del_13q14.13' versus Clinical Feature #12: 'RACE'

'del_14q31.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0376 (Fisher's exact test), Q value = 0.16

Table S189. Gene #54: 'del_14q31.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 29(14Q31.1) MUTATED	73	41	33
DEL PEAK 29(14Q31.1) WILD-TYPE	187	64	49

Figure S189. 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 = 0.00895 (Fisher's exact test), Q value = 0.061

Table S190. Gene #54: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 29(14Q31.1) MUTATED	100	31
DEL PEAK 29(14Q31.1) WILD-TYPE	224	33

Figure S190. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_14q31.1' versus 'HISTOLOGICAL_TYPE'

P value = 9.56e-07 (Fisher's exact test), Q value = 8.6e-05

Table S191. Gene #54: 'del_14q31.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 29(14Q31.1) MUTATED	139	4
DEL PEAK 29(14Q31.1) WILD-TYPE	243	56

Figure S191. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_14q31.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0169 (Wilcoxon-test), Q value = 0.095

Table S192. Gene #54: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 29(14Q31.1) MUTATED	138	2.6 (4.9)
DEL PEAK 29(14Q31.1) WILD-TYPE	283	1.8 (4.2)

Figure S192. Get High-res Image Gene #54: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0204 (Fisher's exact test), Q value = 0.11

Table S193. Gene #55: 'del_15q11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 30(15Q11.2) MUTATED	28	0	7	42	2	0	7	6	24	20	23	11	2
DEL PEAK 30(15Q11.2) WILD-TYPE	46	1	21	91	6	1	14	3	35	20	22	6	0

Figure S193. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0195 (Fisher's exact test), Q value = 0.1

Table S194. Gene #55: 'del_15q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 30(15Q11.2) MUTATED	88	49	39
DEL PEAK 30(15Q11.2) WILD-TYPE	172	56	43

Figure S194. 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 = 0.00487 (Fisher's exact test), Q value = 0.041

Table S195. Gene #55: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 30(15Q11.2) MUTATED	118	36
DEL PEAK 30(15Q11.2) WILD-TYPE	206	28

Figure S195. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0337 (Fisher's exact test), Q value = 0.15

Table S196. Gene #55: 'del_15q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 30(15Q11.2) MUTATED	157	16
DEL PEAK 30(15Q11.2) WILD-TYPE	225	44

Figure S196. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00853 (Wilcoxon-test), Q value = 0.06

Table S197. Gene #55: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 30(15Q11.2) MUTATED	167	2.4 (3.8)
DEL PEAK 30(15Q11.2) WILD-TYPE	254	1.9 (4.8)

Figure S197. Get High-res Image Gene #55: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q15.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0267 (Fisher's exact test), Q value = 0.13

Table S198. Gene #56: 'del_15q15.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 31(15Q15.2) MUTATED	29	0	7	39	2	0	7	4	23	19	25	10	2
DEL PEAK 31(15Q15.2) WILD-TYPE	45	1	21	94	6	1	14	5	36	21	20	7	0

Figure S198. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q15.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0156 (Fisher's exact test), Q value = 0.09

Table S199. Gene #56: 'del_15q15.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 31(15Q15.2) MUTATED	85	50	36
DEL PEAK 31(15Q15.2) WILD-TYPE	175	55	46

Figure S199. 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 = 0.000621 (Fisher's exact test), Q value = 0.011

Table S200. Gene #56: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 31(15Q15.2) MUTATED	110	37
DEL PEAK 31(15Q15.2) WILD-TYPE	214	27

Figure S200. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q15.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0313 (Fisher's exact test), Q value = 0.14

Table S201. Gene #56: 'del_15q15.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 31(15Q15.2) MUTATED	153	15
DEL PEAK 31(15Q15.2) WILD-TYPE	229	45

Figure S201. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q15.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0155 (Wilcoxon-test), Q value = 0.09

Table S202. Gene #56: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 31(15Q15.2) MUTATED	163	2.3 (3.8)
DEL PEAK 31(15Q15.2) WILD-TYPE	258	2.0 (4.8)

Figure S202. Get High-res Image Gene #56: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0649 (Fisher's exact test), Q value = 0.23

Table S203. Gene #57: 'del_15q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 32(15Q21.1) MUTATED	86	47	35
DEL PEAK 32(15Q21.1) WILD-TYPE	174	58	47

Figure S203. 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 = 0.00103 (Fisher's exact test), Q value = 0.014

Table S204. Gene #57: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 32(15Q21.1) MUTATED	109	36
DEL PEAK 32(15Q21.1) WILD-TYPE	215	28

Figure S204. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.032 (Fisher's exact test), Q value = 0.14

Table S205. Gene #57: 'del_15q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 32(15Q21.1) MUTATED	151	15
DEL PEAK 32(15Q21.1) WILD-TYPE	231	45

Figure S205. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0534 (Wilcoxon-test), Q value = 0.2

Table S206. Gene #57: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 32(15Q21.1) MUTATED	160	2.3 (3.8)
DEL PEAK 32(15Q21.1) WILD-TYPE	261	2.0 (4.8)

Figure S206. Get High-res Image Gene #57: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q22.33' versus 'PATHOLOGIC_STAGE'

P value = 0.0146 (Fisher's exact test), Q value = 0.087

Table S207. Gene #58: 'del_15q22.33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 33(15Q22.33) MUTATED	23	0	6	39	2	0	6	5	20	20	23	11	1
DEL PEAK 33(15Q22.33) WILD-TYPE	51	1	22	94	6	1	15	4	39	20	22	6	1

Figure S207. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q22.33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0179 (Fisher's exact test), Q value = 0.097

Table S208. Gene #58: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 33(15Q22.33) MUTATED	79	44	37
DEL PEAK 33(15Q22.33) WILD-TYPE	181	61	45

Figure S208. 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 = 0.000554 (Fisher's exact test), Q value = 0.0099

Table S209. Gene #58: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 33(15Q22.33) MUTATED	102	35
DEL PEAK 33(15Q22.33) WILD-TYPE	222	29

Figure S209. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q22.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0416 (Fisher's exact test), Q value = 0.17

Table S210. Gene #58: 'del_15q22.33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 33(15Q22.33) MUTATED	143	14
DEL PEAK 33(15Q22.33) WILD-TYPE	239	46

Figure S210. Get High-res Image Gene #58: 'del_15q22.33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q22.33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0107 (Wilcoxon-test), Q value = 0.069

Table S211. Gene #58: 'del_15q22.33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 33(15Q22.33) MUTATED	152	2.3 (3.8)
DEL PEAK 33(15Q22.33) WILD-TYPE	269	2.0 (4.8)

Figure S211. 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 = 0.0115 (logrank test), Q value = 0.072

Table S212. Gene #59: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 34(16P13.3) MUTATED	52	18	0.5 - 61.8 (19.2)
DEL PEAK 34(16P13.3) WILD-TYPE	381	81	0.0 - 148.0 (22.0)

Figure S212. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

'del_16p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.0405 (Fisher's exact test), Q value = 0.17

Table S213. Gene #59: 'del_16p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 34(16P13.3) MUTATED	3	0	3	17	2	0	0	0	9	9	6	5	0
DEL PEAK 34(16P13.3) WILD-TYPE	71	1	25	116	6	1	21	9	50	31	39	12	2

Figure S213. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_16p13.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.032 (Fisher's exact test), Q value = 0.14

Table S214. Gene #59: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	53
DEL PEAK 34(16P13.3) MUTATED	0	3	45	7
DEL PEAK 34(16P13.3) WILD-TYPE	11	74	260	46

Figure S214. Get High-res Image Gene #59: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'del_16q23.1' versus 'Time to Death'

P value = 0.0225 (logrank test), Q value = 0.11

Table S215. Gene #60: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 35(16Q23.1) MUTATED	59	17	0.9 - 53.0 (18.1)
DEL PEAK 35(16Q23.1) WILD-TYPE	374	82	0.0 - 148.0 (22.2)

Figure S215. Get High-res Image Gene #60: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

'del_17p12' versus 'YEARS_TO_BIRTH'

P value = 0.0299 (Wilcoxon-test), Q value = 0.14

Table S216. Gene #61: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 36(17P12) MUTATED	251	65.9 (12.5)
DEL PEAK 36(17P12) WILD-TYPE	194	68.3 (13.6)

Figure S216. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17p12' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 5e-04

Table S217. Gene #61: 'del_17p12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 36(17P12) MUTATED	36	0	13	57	1	1	13	9	36	30	34	13	2
DEL PEAK 36(17P12) WILD-TYPE	38	1	15	76	7	0	8	0	23	10	11	4	0

Figure S217. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_17p12' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 5e-04

Table S218. Gene #61: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 36(17P12) MUTATED	121	71	59
DEL PEAK 36(17P12) WILD-TYPE	139	34	23

Figure S218. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_17p12' versus 'PATHOLOGY_M_STAGE'

P value = 0.000491 (Fisher's exact test), Q value = 0.0093

Table S219. Gene #61: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 36(17P12) MUTATED	171	49
DEL PEAK 36(17P12) WILD-TYPE	153	15

Figure S219. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_17p12' versus 'HISTOLOGICAL_TYPE'

P value = 1.16e-06 (Fisher's exact test), Q value = 9.5e-05

Table S220. Gene #61: 'del_17p12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 36(17P12) MUTATED	231	16
DEL PEAK 36(17P12) WILD-TYPE	151	44

Figure S220. Get High-res Image Gene #61: 'del_17p12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_17p12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 2.18e-06 (Wilcoxon-test), Q value = 0.00016

Table S221. Gene #61: 'del_17p12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 36(17P12) MUTATED	236	2.8 (5.4)
DEL PEAK 36(17P12) WILD-TYPE	185	1.2 (2.6)

Figure S221. 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 = 0.0657 (logrank test), Q value = 0.23

Table S222. Gene #62: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	433	99	0.0 - 148.0 (21.9)
DEL PEAK 37(17Q24.3) MUTATED	67	21	0.2 - 140.4 (22.5)
DEL PEAK 37(17Q24.3) WILD-TYPE	366	78	0.0 - 148.0 (21.4)

Figure S222. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

'del_17q24.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00329 (Fisher's exact test), Q value = 0.03

Table S223. Gene #62: 'del_17q24.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	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	123	8	1	18	6	52	29	35	10	1

Figure S223. Get High-res Image Gene #62: 'del_17q24.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_17q24.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00209 (Fisher's exact test), Q value = 0.024

Table S224. Gene #62: 'del_17q24.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 37(17Q24.3) MUTATED	27	23	19
DEL PEAK 37(17Q24.3) WILD-TYPE	233	82	63

Figure S224. 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 = 0.00183 (Fisher's exact test), Q value = 0.022

Table S225. Gene #62: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 37(17Q24.3) MUTATED	39	18
DEL PEAK 37(17Q24.3) WILD-TYPE	285	46

Figure S225. 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 = 8.97e-05 (Wilcoxon-test), Q value = 0.0029

Table S226. Gene #62: 'del_17q24.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 37(17Q24.3) MUTATED	65	3.0 (3.9)
DEL PEAK 37(17Q24.3) WILD-TYPE	356	1.9 (4.5)

Figure S226. 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 = 0.0119 (Wilcoxon-test), Q value = 0.074

Table S227. Gene #63: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 38(18P11.31) MUTATED	244	65.8 (12.2)
DEL PEAK 38(18P11.31) WILD-TYPE	201	68.4 (13.8)

Figure S227. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18p11.31' versus 'PATHOLOGIC_STAGE'

P value = 0.00044 (Fisher's exact test), Q value = 0.009

Table S228. Gene #63: 'del_18p11.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 38(18P11.31) MUTATED	36	0	10	67	2	1	9	7	34	22	33	16	1
DEL PEAK 38(18P11.31) WILD-TYPE	38	1	18	66	6	0	12	2	25	18	12	1	1

Figure S228. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18p11.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0266 (Fisher's exact test), Q value = 0.13

Table S229. Gene #63: 'del_18p11.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 38(18P11.31) MUTATED	129	68	47
DEL PEAK 38(18P11.31) WILD-TYPE	131	37	35

Figure S229. 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 = 3.27e-05 (Fisher's exact test), Q value = 0.0012

Table S230. Gene #63: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 38(18P11.31) MUTATED	163	50
DEL PEAK 38(18P11.31) WILD-TYPE	161	14

Figure S230. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18p11.31' versus 'HISTOLOGICAL_TYPE'

P value = 1.95e-11 (Fisher's exact test), Q value = 1.7e-08

Table S231. Gene #63: 'del_18p11.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 38(18P11.31) MUTATED	231	9
DEL PEAK 38(18P11.31) WILD-TYPE	151	51

Figure S231. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18p11.31' versus 'RESIDUAL_TUMOR'

P value = 0.0474 (Fisher's exact test), Q value = 0.19

Table S232. Gene #63: 'del_18p11.31' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	319	3	25	25
DEL PEAK 38(18P11.31) MUTATED	172	0	18	11
DEL PEAK 38(18P11.31) WILD-TYPE	147	3	7	14

Figure S232. Get High-res Image Gene #63: 'del_18p11.31' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_18p11.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0395 (Wilcoxon-test), Q value = 0.17

Table S233. Gene #63: 'del_18p11.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 38(18P11.31) MUTATED	229	2.2 (4.1)
DEL PEAK 38(18P11.31) WILD-TYPE	192	2.0 (4.9)

Figure S233. 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 = 0.0304 (Wilcoxon-test), Q value = 0.14

Table S234. Gene #64: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 39(18Q12.2) MUTATED	271	66.1 (12.3)
DEL PEAK 39(18Q12.2) WILD-TYPE	174	68.3 (14.0)

Figure S234. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q12.2' versus 'PATHOLOGIC_STAGE'

P value = 7e-04 (Fisher's exact test), Q value = 0.011

Table S235. Gene #64: 'del_18q12.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 39(18Q12.2) MUTATED	38	0	15	71	2	1	12	9	38	27	36	14	1
DEL PEAK 39(18Q12.2) WILD-TYPE	36	1	13	62	6	0	9	0	21	13	9	3	1

Figure S235. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18q12.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00123 (Fisher's exact test), Q value = 0.015

Table S236. Gene #64: 'del_18q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 39(18Q12.2) MUTATED	139	74	58
DEL PEAK 39(18Q12.2) WILD-TYPE	121	31	24

Figure S236. 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 = 0.00115 (Fisher's exact test), Q value = 0.015

Table S237. Gene #64: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 39(18Q12.2) MUTATED	189	51
DEL PEAK 39(18Q12.2) WILD-TYPE	135	13

Figure S237. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q12.2' versus 'HISTOLOGICAL_TYPE'

P value = 3.93e-10 (Fisher's exact test), Q value = 1.4e-07

Table S238. Gene #64: 'del_18q12.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 39(18Q12.2) MUTATED	254	14
DEL PEAK 39(18Q12.2) WILD-TYPE	128	46

Figure S238. Get High-res Image Gene #64: 'del_18q12.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18q12.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00293 (Wilcoxon-test), Q value = 0.029

Table S239. Gene #64: 'del_18q12.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 39(18Q12.2) MUTATED	256	2.3 (4.6)
DEL PEAK 39(18Q12.2) WILD-TYPE	165	1.7 (4.2)

Figure S239. 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 = 0.0564 (Wilcoxon-test), Q value = 0.21

Table S240. Gene #65: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	445	67.0 (13.0)
DEL PEAK 40(18Q21.2) MUTATED	285	66.2 (12.3)
DEL PEAK 40(18Q21.2) WILD-TYPE	160	68.2 (14.2)

Figure S240. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q21.2' versus 'PATHOLOGIC_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 0.0024

Table S241. Gene #65: 'del_18q21.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 40(18Q21.2) MUTATED	40	0	16	73	2	1	12	9	41	30	38	15	2
DEL PEAK 40(18Q21.2) WILD-TYPE	34	1	12	60	6	0	9	0	18	10	7	2	0

Figure S241. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18q21.2' versus 'PATHOLOGY_N_STAGE'

P value = 5e-05 (Fisher's exact test), Q value = 0.0018

Table S242. Gene #65: 'del_18q21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 40(18Q21.2) MUTATED	144	78	63
DEL PEAK 40(18Q21.2) WILD-TYPE	116	27	19

Figure S242. 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 = 8.47e-05 (Fisher's exact test), Q value = 0.0028

Table S243. Gene #65: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 40(18Q21.2) MUTATED	197	55
DEL PEAK 40(18Q21.2) WILD-TYPE	127	9

Figure S243. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q21.2' versus 'GENDER'

P value = 0.0392 (Fisher's exact test), Q value = 0.17

Table S244. Gene #65: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	211	236
DEL PEAK 40(18Q21.2) MUTATED	124	161
DEL PEAK 40(18Q21.2) WILD-TYPE	87	75

Figure S244. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

'del_18q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 4.59e-10 (Fisher's exact test), Q value = 1.4e-07

Table S245. Gene #65: 'del_18q21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 40(18Q21.2) MUTATED	266	16
DEL PEAK 40(18Q21.2) WILD-TYPE	116	44

Figure S245. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18q21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 9.74e-05 (Wilcoxon-test), Q value = 0.003

Table S246. Gene #65: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 40(18Q21.2) MUTATED	270	2.4 (4.6)
DEL PEAK 40(18Q21.2) WILD-TYPE	151	1.6 (4.2)

Figure S246. Get High-res Image Gene #65: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_19p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00586 (Fisher's exact test), Q value = 0.046

Table S247. Gene #66: 'del_19p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 41(19P13.3) MUTATED	8	0	1	11	0	0	5	2	6	12	10	4	1
DEL PEAK 41(19P13.3) WILD-TYPE	66	1	27	122	8	1	16	7	53	28	35	13	1

Figure S247. Get High-res Image Gene #66: 'del_19p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_19p13.3' versus 'PATHOLOGY_N_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.0012

Table S248. Gene #66: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 41(19P13.3) MUTATED	22	16	24
DEL PEAK 41(19P13.3) WILD-TYPE	238	89	58

Figure S248. 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 = 0.0171 (Fisher's exact test), Q value = 0.095

Table S249. Gene #66: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 41(19P13.3) MUTATED	38	15
DEL PEAK 41(19P13.3) WILD-TYPE	286	49

Figure S249. 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 = 2.82e-06 (Wilcoxon-test), Q value = 0.00019

Table S250. Gene #66: 'del_19p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 41(19P13.3) MUTATED	59	4.3 (6.0)
DEL PEAK 41(19P13.3) WILD-TYPE	362	1.7 (4.1)

Figure S250. 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 = 0.031 (Fisher's exact test), Q value = 0.14

Table S251. Gene #67: 'del_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 42(20P12.1) MUTATED	77	5
DEL PEAK 42(20P12.1) WILD-TYPE	305	55

Figure S251. Get High-res Image Gene #67: 'del_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0392 (Fisher's exact test), Q value = 0.17

Table S252. Gene #68: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 43(21Q11.2) MUTATED	72	32	35
DEL PEAK 43(21Q11.2) WILD-TYPE	188	73	47

Figure S252. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_21q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0014 (Fisher's exact test), Q value = 0.017

Table S253. Gene #68: 'del_21q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 43(21Q11.2) MUTATED	128	8
DEL PEAK 43(21Q11.2) WILD-TYPE	254	52

Figure S253. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0489 (Wilcoxon-test), Q value = 0.19

Table S254. Gene #68: 'del_21q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 43(21Q11.2) MUTATED	132	3.0 (6.3)
DEL PEAK 43(21Q11.2) WILD-TYPE	289	1.7 (3.3)

Figure S254. Get High-res Image Gene #68: 'del_21q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_22q13.32' versus 'PATHOLOGIC_STAGE'

P value = 0.00101 (Fisher's exact test), Q value = 0.014

Table S255. Gene #69: 'del_22q13.32' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

nPatients	STAGE I	STAGE IA	STAGE II	STAGE IIA	STAGE IIB	STAGE IIC	STAGE III	STAGE IIIA	STAGE IIIB	STAGE IIIC	STAGE IV	STAGE IVA	STAGE IVB
ALL	74	1	28	133	8	1	21	9	59	40	45	17	2
DEL PEAK 44(22Q13.32) MUTATED	19	0	7	40	1	0	7	7	19	21	25	8	0
DEL PEAK 44(22Q13.32) WILD-TYPE	55	1	21	93	7	1	14	2	40	19	20	9	2

Figure S255. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_22q13.32' versus 'PATHOLOGY_N_STAGE'

P value = 0.00068 (Fisher's exact test), Q value = 0.011

Table S256. Gene #69: 'del_22q13.32' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	260	105	82
DEL PEAK 44(22Q13.32) MUTATED	73	45	40
DEL PEAK 44(22Q13.32) WILD-TYPE	187	60	42

Figure S256. 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 = 0.00402 (Fisher's exact test), Q value = 0.036

Table S257. Gene #69: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	324	64
DEL PEAK 44(22Q13.32) MUTATED	104	33
DEL PEAK 44(22Q13.32) WILD-TYPE	220	31

Figure S257. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 0.00228 (Fisher's exact test), Q value = 0.025

Table S258. Gene #69: 'del_22q13.32' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	60
DEL PEAK 44(22Q13.32) MUTATED	146	11
DEL PEAK 44(22Q13.32) WILD-TYPE	236	49

Figure S258. Get High-res Image Gene #69: 'del_22q13.32' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000252 (Wilcoxon-test), Q value = 0.0057

Table S259. Gene #69: 'del_22q13.32' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	421	2.1 (4.5)
DEL PEAK 44(22Q13.32) MUTATED	149	2.8 (4.9)
DEL PEAK 44(22Q13.32) WILD-TYPE	272	1.7 (4.2)

Figure S259. 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/19780705/transformed.cor.cli.txt
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/COAD-TP/19775087/COAD-TP.merged_data.txt
Number of patients = 447
Number of significantly focal cnvs = 69
Number of selected clinical features = 13
Exclude genes that fewer than K tumors have mutations, K = 3

Survival analysis

For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' function in R

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References

[1] Bland and Altman, Statistics notes: The logrank test, BMJ 328(7447):1073 (2004)

[2] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)

[3] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)

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