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

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 66 focal events and 13 clinical features across 449 patients, 272 significant findings detected with Q value < 0.25.

amp_2q33.1 cnv correlated to 'PATHOLOGY_N_STAGE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
amp_5p13.2 cnv correlated to 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
amp_6p21.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', and 'NUMBER_OF_LYMPH_NODES'.
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', 'HISTOLOGICAL_TYPE', and 'ETHNICITY'.
amp_20p12.1 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_M_STAGE', 'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.
amp_20p11.23 cnv correlated to 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', and 'NUMBER_OF_LYMPH_NODES'.
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 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_2q22.1 cnv correlated to 'NUMBER_OF_LYMPH_NODES' and 'RACE'.
del_3p26.1 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_N_STAGE', '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', 'HISTOLOGICAL_TYPE', 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', 'NUMBER_OF_LYMPH_NODES', and 'ETHNICITY'.
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_8p23.2 cnv correlated to 'YEARS_TO_BIRTH', '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', 'HISTOLOGICAL_TYPE', and 'NUMBER_OF_LYMPH_NODES'.
del_10q25.2 cnv correlated to 'YEARS_TO_BIRTH', 'PATHOLOGIC_STAGE', 'PATHOLOGY_N_STAGE', 'PATHOLOGY_M_STAGE', 'HISTOLOGICAL_TYPE', 'RESIDUAL_TUMOR', 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', 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_18q22.1 cnv correlated to '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', 'RESIDUAL_TUMOR', 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 66 focal events and 13 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 272 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%)	248	0.0489 (0.177)	0.0262 (0.118)	1e-05 (0.00039)	0.0485 (0.177)	1e-05 (0.00039)	4.51e-06 (0.000258)	0.0573 (0.196)	0.52 (0.788)	0.00142 (0.0151)	0.0307 (0.131)	3.44e-07 (2.55e-05)	0.399 (0.683)	0.35 (0.635)
del 4p16 2	138 (31%)	311	0.0307 (0.131)	0.868 (0.993)	0.00063 (0.00886)	0.473 (0.752)	0.0008 (0.0105)	4.25e-05 (0.00135)	0.413 (0.693)	0.468 (0.751)	0.0173 (0.0883)	0.0791 (0.25)	0.00035 (0.00661)	0.344 (0.632)	0.077 (0.246)
del 8p23 2	188 (42%)	261	0.205 (0.477)	0.0708 (0.235)	1e-05 (0.00039)	0.0975 (0.289)	1e-05 (0.00039)	2.5e-05 (0.000856)	0.0128 (0.0714)	0.739 (0.906)	0.00328 (0.0271)	0.023 (0.109)	4.13e-06 (0.000253)	0.393 (0.681)	0.319 (0.604)
del 10q21 1	97 (22%)	352	0.759 (0.912)	0.0433 (0.167)	0.00644 (0.0453)	0.962 (1.00)	0.0211 (0.102)	0.00478 (0.0359)	1 (1.00)	0.222 (0.5)	0.031 (0.131)	0.138 (0.367)	0.01 (0.0604)	0.586 (0.843)	0.0413 (0.161)
del 10q25 2	108 (24%)	341	0.252 (0.534)	0.0582 (0.197)	0.0662 (0.221)	0.403 (0.685)	0.0125 (0.0711)	0.018 (0.0904)	1 (1.00)	0.696 (0.898)	0.077 (0.246)	0.0563 (0.194)	0.00666 (0.0461)	1 (1.00)	0.266 (0.552)
del 18q21 2	286 (64%)	163	0.738 (0.906)	0.0488 (0.177)	8e-05 (0.00214)	0.736 (0.906)	0.00011 (0.0027)	8.66e-05 (0.00218)	0.0393 (0.156)	1 (1.00)	1.07e-10 (2.29e-08)	0.159 (0.405)	8.37e-05 (0.00218)	0.805 (0.952)	1 (1.00)
amp 13q12 13	275 (61%)	174	0.757 (0.911)	0.597 (0.853)	0.00061 (0.00872)	0.98 (1.00)	0.00137 (0.0149)	0.00114 (0.0128)	0.846 (0.98)	1 (1.00)	1.77e-07 (1.9e-05)	0.0275 (0.122)	0.0023 (0.0219)	0.147 (0.385)	1 (1.00)
amp 13q22 1	277 (62%)	172	0.708 (0.904)	0.773 (0.924)	0.00019 (0.00418)	0.906 (1.00)	0.00023 (0.00481)	0.00306 (0.0267)	0.331 (0.616)	1 (1.00)	1.68e-07 (1.9e-05)	0.0571 (0.196)	0.0021 (0.0207)	0.122 (0.346)	1 (1.00)
amp 20p11 23	219 (49%)	230	0.297 (0.592)	0.725 (0.904)	0.00081 (0.0105)	0.866 (0.993)	0.052 (0.184)	0.000326 (0.00636)	0.298 (0.593)	0.324 (0.609)	0.0132 (0.0728)	0.0159 (0.0836)	0.0775 (0.246)	0.396 (0.682)	1 (1.00)
del 1p36 11	167 (37%)	282	0.0473 (0.175)	0.0802 (0.251)	0.00042 (0.00735)	0.737 (0.906)	0.0172 (0.0883)	1.79e-05 (0.00064)	0.118 (0.337)	0.493 (0.769)	0.000585 (0.00872)	0.124 (0.348)	0.00356 (0.0286)	0.113 (0.327)	0.631 (0.877)
del 1p33	123 (27%)	326	0.00283 (0.0258)	0.946 (1.00)	0.0232 (0.109)	0.316 (0.603)	0.0294 (0.128)	0.00541 (0.0404)	0.397 (0.683)	1 (1.00)	0.0138 (0.0748)	0.236 (0.516)	0.00833 (0.0541)	0.309 (0.597)	0.316 (0.603)
del 3p26 1	71 (16%)	378	0.0786 (0.249)	0.413 (0.693)	0.034 (0.14)	0.133 (0.361)	0.00878 (0.0564)	0.000589 (0.00872)	0.699 (0.898)	0.367 (0.653)	0.025 (0.114)	0.159 (0.405)	0.0116 (0.0675)	0.957 (1.00)	0.123 (0.346)
del 4q22 1	150 (33%)	299	0.0395 (0.156)	0.352 (0.635)	0.00979 (0.06)	0.167 (0.415)	0.0008 (0.0105)	0.0204 (0.0992)	0.318 (0.603)	0.725 (0.904)	0.00374 (0.0295)	0.806 (0.952)	0.000307 (0.00612)	0.226 (0.506)	0.123 (0.346)
del 5q12 1	105 (23%)	344	0.123 (0.346)	0.0972 (0.289)	0.00355 (0.0286)	0.875 (0.996)	0.0147 (0.0791)	0.0216 (0.104)	0.22 (0.498)	1 (1.00)	0.0356 (0.144)	0.434 (0.717)	0.006 (0.0433)	0.364 (0.65)	0.051 (0.182)
del 10q23 31	108 (24%)	341	0.588 (0.843)	0.00317 (0.0267)	0.0122 (0.0696)	0.895 (1.00)	0.04 (0.157)	0.0167 (0.0865)	0.581 (0.843)	0.702 (0.899)	0.0765 (0.246)	0.285 (0.578)	0.00894 (0.0564)	0.778 (0.928)	0.284 (0.578)
del 17p12	252 (56%)	197	0.481 (0.76)	0.0249 (0.114)	1e-05 (0.00039)	0.837 (0.975)	1e-05 (0.00039)	0.000496 (0.00805)	0.155 (0.398)	1 (1.00)	3.56e-07 (2.55e-05)	0.258 (0.543)	1.94e-06 (0.000128)	0.703 (0.899)	0.635 (0.878)
del 18p11 31	247 (55%)	202	0.363 (0.65)	0.0517 (0.183)	0.00019 (0.00418)	0.946 (1.00)	0.0105 (0.0617)	1.47e-05 (0.00055)	0.448 (0.733)	1 (1.00)	2.97e-11 (1.27e-08)	0.129 (0.353)	0.0304 (0.131)	0.683 (0.895)	0.632 (0.877)
del 18q12 2	272 (61%)	177	0.675 (0.892)	0.0258 (0.116)	0.00122 (0.0134)	0.663 (0.89)	0.0011 (0.0128)	0.00114 (0.0128)	0.123 (0.346)	1 (1.00)	9.05e-11 (2.29e-08)	0.222 (0.5)	0.00262 (0.0244)	0.916 (1.00)	1 (1.00)
del 18q22 1	285 (63%)	164	0.847 (0.98)	0.0989 (0.293)	4e-05 (0.00132)	0.762 (0.914)	0.00019 (0.00418)	5.17e-05 (0.00153)	0.031 (0.131)	1 (1.00)	1.29e-11 (1.1e-08)	0.323 (0.609)	0.000261 (0.00533)	0.837 (0.975)	1 (1.00)
amp 20q11 21	321 (71%)	128	0.842 (0.978)	0.52 (0.788)	0.0147 (0.0791)	0.19 (0.456)	0.00784 (0.0521)	0.00596 (0.0433)	0.209 (0.484)	1 (1.00)	2.02e-07 (1.92e-05)	0.164 (0.412)	0.0189 (0.0938)	0.827 (0.97)	1 (1.00)
amp 20q12	322 (72%)	127	0.716 (0.904)	0.52 (0.788)	0.00602 (0.0433)	0.286 (0.578)	0.0104 (0.0617)	0.00217 (0.0212)	0.173 (0.425)	1 (1.00)	2.8e-08 (4.8e-06)	0.165 (0.412)	0.0198 (0.0976)	0.743 (0.906)	1 (1.00)
amp 20q13 12	324 (72%)	125	0.975 (1.00)	0.625 (0.875)	0.00309 (0.0267)	0.399 (0.683)	0.00562 (0.0416)	0.0011 (0.0128)	0.171 (0.422)	1 (1.00)	7.27e-08 (1.04e-05)	0.164 (0.412)	0.00643 (0.0453)	0.648 (0.883)	1 (1.00)
del 1p13 1	118 (26%)	331	0.0952 (0.286)	0.498 (0.773)	0.00654 (0.0456)	0.488 (0.767)	0.00958 (0.0591)	0.00306 (0.0267)	0.238 (0.517)	1 (1.00)	0.045 (0.169)	0.223 (0.501)	0.00107 (0.0128)	0.24 (0.52)	0.303 (0.597)
del 4q35 1	157 (35%)	292	0.44 (0.725)	0.107 (0.313)	0.0482 (0.177)	0.351 (0.635)	0.00321 (0.0267)	0.00998 (0.0604)	0.375 (0.66)	0.294 (0.587)	0.0623 (0.21)	0.466 (0.748)	0.000771 (0.0105)	0.1 (0.296)	0.126 (0.35)
del 5q21 1	126 (28%)	323	0.134 (0.363)	0.157 (0.404)	5e-05 (0.00153)	1 (1.00)	0.00158 (0.0163)	0.00895 (0.0564)	0.248 (0.529)	1 (1.00)	0.543 (0.818)	0.323 (0.609)	0.000501 (0.00805)	0.453 (0.735)	0.077 (0.246)
del 6q26	61 (14%)	388	0.0238 (0.111)	0.907 (1.00)	0.142 (0.375)	0.519 (0.788)	0.00272 (0.0251)	0.0264 (0.118)	0.679 (0.892)	0.328 (0.613)	1 (1.00)	0.166 (0.413)	0.00099 (0.0125)	0.0433 (0.167)	1 (1.00)
del 12p13 2	60 (13%)	389	0.047 (0.175)	0.16 (0.406)	0.147 (0.385)	0.85 (0.982)	0.0712 (0.235)	0.0601 (0.203)	0.68 (0.892)	1 (1.00)	0.00825 (0.054)	0.587 (0.843)	0.075 (0.246)	0.736 (0.906)	1 (1.00)
del 15q11 2	176 (39%)	273	0.718 (0.904)	0.668 (0.892)	0.0295 (0.128)	0.977 (1.00)	0.015 (0.0801)	0.00316 (0.0267)	0.561 (0.832)	0.744 (0.906)	0.0245 (0.114)	0.559 (0.832)	0.00748 (0.0501)	0.405 (0.686)	0.649 (0.883)
del 15q15 2	171 (38%)	278	0.554 (0.826)	0.259 (0.543)	0.0252 (0.114)	0.951 (1.00)	0.013 (0.0721)	0.00037 (0.00661)	0.56 (0.832)	0.741 (0.906)	0.0167 (0.0865)	0.335 (0.622)	0.0137 (0.0748)	0.28 (0.573)	0.643 (0.883)
del 15q22 33	160 (36%)	289	0.68 (0.892)	0.457 (0.739)	0.0203 (0.0992)	0.589 (0.843)	0.0156 (0.0826)	0.000507 (0.00805)	0.49 (0.767)	0.727 (0.904)	0.0226 (0.108)	0.511 (0.786)	0.00948 (0.0589)	0.236 (0.516)	0.628 (0.877)
del 17q24 3	69 (15%)	380	0.0711 (0.235)	0.307 (0.597)	0.00308 (0.0267)	0.316 (0.603)	0.0019 (0.019)	0.00317 (0.0267)	0.36 (0.648)	1 (1.00)	1 (1.00)	0.292 (0.587)	7.89e-05 (0.00214)	0.276 (0.57)	1 (1.00)
del 19p13 3	63 (14%)	386	0.526 (0.796)	0.0816 (0.253)	0.00228 (0.0219)	0.775 (0.925)	6e-05 (0.00172)	0.0285 (0.126)	0.341 (0.63)	1 (1.00)	0.171 (0.422)	0.0351 (0.143)	5.08e-06 (0.000273)	0.889 (1.00)	1 (1.00)
del 22q13 32	158 (35%)	291	0.21 (0.485)	0.394 (0.681)	0.00101 (0.0126)	0.716 (0.904)	0.0005 (0.00805)	0.00399 (0.0308)	0.621 (0.873)	1 (1.00)	0.00152 (0.0159)	0.508 (0.783)	0.000214 (0.0046)	0.339 (0.629)	0.61 (0.863)
amp 8q24 21	258 (57%)	191	0.346 (0.633)	0.0558 (0.193)	0.0293 (0.128)	0.33 (0.615)	0.236 (0.516)	0.0128 (0.0714)	0.251 (0.534)	1 (1.00)	0.0376 (0.15)	0.362 (0.649)	0.178 (0.431)	0.585 (0.843)	1 (1.00)
amp 11p15 5	91 (20%)	358	0.746 (0.906)	0.0101 (0.0604)	0.442 (0.726)	0.245 (0.529)	0.0501 (0.179)	0.128 (0.353)	0.725 (0.904)	0.692 (0.898)	0.00317 (0.0267)	0.532 (0.803)	0.0449 (0.169)	0.318 (0.603)	1 (1.00)
amp 16p11 2	125 (28%)	324	0.589 (0.843)	0.325 (0.609)	0.00059 (0.00872)	0.451 (0.734)	0.00037 (0.00661)	0.286 (0.578)	0.752 (0.908)	1 (1.00)	0.0019 (0.019)	0.876 (0.996)	0.000156 (0.00373)	0.498 (0.773)	0.31 (0.597)
amp 16q12 1	111 (25%)	338	0.134 (0.361)	0.141 (0.373)	0.00037 (0.00661)	0.867 (0.993)	0.00104 (0.0127)	0.872 (0.995)	0.662 (0.89)	1 (1.00)	0.00236 (0.0222)	0.748 (0.906)	0.000439 (0.00754)	0.294 (0.587)	0.259 (0.543)
amp 20p12 1	195 (43%)	254	0.257 (0.543)	0.465 (0.748)	0.016 (0.0839)	0.672 (0.892)	0.233 (0.516)	0.000819 (0.0105)	0.217 (0.495)	0.0447 (0.169)	0.0376 (0.15)	0.0817 (0.253)	0.198 (0.466)	0.577 (0.843)	0.646 (0.883)
amp 20p11 21	251 (56%)	198	0.517 (0.788)	0.723 (0.904)	0.00174 (0.0178)	0.546 (0.821)	0.232 (0.516)	0.000572 (0.00872)	0.184 (0.444)	0.309 (0.597)	0.00143 (0.0151)	0.0408 (0.16)	0.344 (0.632)	0.824 (0.967)	0.632 (0.877)
del 5q22 2	129 (29%)	320	0.115 (0.328)	0.247 (0.529)	0.0045 (0.0343)	0.996 (1.00)	0.0416 (0.161)	0.00342 (0.0279)	0.0952 (0.286)	0.712 (0.904)	0.174 (0.427)	0.112 (0.324)	0.0182 (0.091)	0.416 (0.695)	0.0797 (0.251)
del 10p15 3	78 (17%)	371	0.976 (1.00)	0.341 (0.63)	0.00115 (0.0128)	0.904 (1.00)	0.011 (0.064)	0.00106 (0.0128)	0.901 (1.00)	0.686 (0.897)	0.37 (0.654)	0.676 (0.892)	0.00361 (0.0286)	0.516 (0.788)	0.565 (0.834)
del 14q31 1	149 (33%)	300	0.709 (0.904)	0.209 (0.484)	0.306 (0.597)	0.309 (0.597)	0.031 (0.131)	0.00929 (0.0582)	0.367 (0.653)	0.724 (0.904)	3.01e-07 (2.55e-05)	0.365 (0.651)	0.0126 (0.0711)	0.939 (1.00)	1 (1.00)
del 15q21 1	168 (37%)	281	0.389 (0.676)	0.639 (0.881)	0.105 (0.309)	0.994 (1.00)	0.0551 (0.192)	0.000651 (0.00901)	0.38 (0.666)	0.735 (0.906)	0.0233 (0.109)	0.159 (0.405)	0.0482 (0.177)	0.195 (0.46)	0.625 (0.875)
amp 2q33 1	92 (20%)	357	0.083 (0.255)	0.572 (0.842)	0.308 (0.597)	0.702 (0.899)	0.012 (0.0694)	0.385 (0.671)	0.414 (0.694)	0.69 (0.898)	0.615 (0.866)	0.0472 (0.175)	0.0105 (0.0617)	0.247 (0.529)	0.235 (0.516)
amp 5p13 2	86 (19%)	363	0.611 (0.864)	0.0815 (0.253)	0.0944 (0.285)	0.51 (0.785)	0.0326 (0.136)	0.0771 (0.246)	0.472 (0.752)	1 (1.00)	1 (1.00)	0.167 (0.415)	0.0177 (0.0892)	0.284 (0.578)	0.581 (0.843)
amp 6p21 1	96 (21%)	353	0.934 (1.00)	0.689 (0.898)	0.0351 (0.143)	0.623 (0.875)	0.00701 (0.0474)	0.317 (0.603)	0.302 (0.597)	1 (1.00)	0.184 (0.444)	0.713 (0.904)	0.00674 (0.0462)	0.161 (0.406)	0.577 (0.843)
amp 17q12	114 (25%)	335	0.136 (0.364)	0.35 (0.635)	0.19 (0.456)	0.0646 (0.217)	0.148 (0.386)	0.00387 (0.0302)	0.194 (0.46)	0.698 (0.898)	0.159 (0.405)	0.216 (0.495)	0.139 (0.37)	0.306 (0.597)	0.0575 (0.196)
amp 17q24 1	106 (24%)	343	0.0345 (0.141)	0.552 (0.824)	0.689 (0.898)	0.195 (0.46)	0.371 (0.655)	0.141 (0.373)	0.739 (0.906)	0.695 (0.898)	0.0767 (0.246)	0.347 (0.633)	0.754 (0.908)	0.803 (0.952)	0.049 (0.177)
del 3p14 2	87 (19%)	362	0.35 (0.635)	0.442 (0.726)	0.382 (0.668)	0.15 (0.391)	0.0726 (0.239)	0.0533 (0.188)	0.72 (0.904)	0.215 (0.494)	0.307 (0.597)	0.813 (0.956)	0.0248 (0.114)	0.662 (0.89)	0.581 (0.843)
del 6p25 3	55 (12%)	394	0.232 (0.516)	0.0502 (0.179)	0.745 (0.906)	0.494 (0.77)	0.832 (0.974)	0.676 (0.892)	0.0443 (0.169)	0.3 (0.594)	0.401 (0.683)	0.352 (0.635)	0.871 (0.995)	0.0452 (0.17)	1 (1.00)
del 16p13 3	56 (12%)	393	0.00451 (0.0343)	0.725 (0.904)	0.0332 (0.138)	0.0293 (0.128)	0.205 (0.477)	0.204 (0.477)	0.671 (0.892)	0.608 (0.862)	0.839 (0.975)	0.421 (0.701)	0.0942 (0.285)	0.347 (0.633)	0.453 (0.735)
del 21q11 2	140 (31%)	309	0.45 (0.734)	0.861 (0.991)	0.259 (0.543)	0.4 (0.683)	0.0436 (0.167)	0.137 (0.367)	0.838 (0.975)	0.475 (0.753)	0.00061 (0.00872)	0.551 (0.824)	0.0555 (0.193)	0.564 (0.834)	0.091 (0.277)
del 2q22 1	24 (5%)	425	0.783 (0.931)	0.754 (0.908)	0.202 (0.475)	0.283 (0.578)	0.0831 (0.255)	1 (1.00)	0.676 (0.892)	1 (1.00)	1 (1.00)	0.736 (0.906)	0.00893 (0.0564)	0.00605 (0.0433)	1 (1.00)
del 9p21 3	61 (14%)	388	0.879 (0.996)	0.0761 (0.246)	0.679 (0.892)	0.652 (0.883)	0.394 (0.681)	0.699 (0.898)	0.129 (0.353)	0.37 (0.654)	0.00824 (0.054)	0.246 (0.529)	0.125 (0.348)	0.401 (0.683)	0.443 (0.726)
del 13q14 13	19 (4%)	430	0.905 (1.00)	0.194 (0.46)	0.294 (0.587)	0.712 (0.904)	0.0366 (0.148)	1 (1.00)	0.815 (0.958)	1 (1.00)	1 (1.00)	0.878 (0.996)	0.136 (0.365)	0.0314 (0.131)	1 (1.00)
del 7q31 1	13 (3%)	436	0.483 (0.762)	0.905 (1.00)	0.727 (0.904)	0.574 (0.843)	1 (1.00)	1 (1.00)	0.78 (0.928)	0.235 (0.516)	1 (1.00)	1 (1.00)	0.694 (0.898)	0.804 (0.952)	0.00699 (0.0474)
del 8q11 1	30 (7%)	419	0.976 (1.00)	0.413 (0.693)	0.114 (0.328)	0.632 (0.877)	0.13 (0.356)	0.406 (0.686)	1 (1.00)	1 (1.00)	1 (1.00)	0.584 (0.843)	0.0965 (0.288)	0.0545 (0.191)	1 (1.00)
del 16q23 1	60 (13%)	389	0.0176 (0.0892)	0.654 (0.885)	0.902 (1.00)	0.644 (0.883)	0.572 (0.842)	0.316 (0.603)	0.491 (0.767)	1 (1.00)	0.548 (0.821)	0.85 (0.982)	0.435 (0.718)	0.0849 (0.26)	0.0856 (0.261)
del 20p12 1	86 (19%)	363	0.131 (0.357)	0.656 (0.886)	0.664 (0.891)	0.549 (0.822)	0.434 (0.717)	0.866 (0.993)	0.811 (0.956)	0.219 (0.496)	0.0217 (0.104)	0.471 (0.752)	0.252 (0.534)	0.422 (0.703)	1 (1.00)
amp 8p11 23	157 (35%)	292	0.388 (0.675)	0.377 (0.662)	0.478 (0.756)	0.671 (0.892)	0.695 (0.898)	0.773 (0.924)	0.767 (0.919)	0.725 (0.904)	0.115 (0.328)	0.645 (0.883)	0.693 (0.898)	0.6 (0.855)	1 (1.00)
amp 8p11 21	187 (42%)	262	0.52 (0.788)	0.309 (0.597)	0.648 (0.883)	0.508 (0.783)	0.667 (0.892)	0.491 (0.767)	0.151 (0.391)	0.505 (0.782)	0.211 (0.486)	0.193 (0.46)	0.742 (0.906)	0.234 (0.516)	0.638 (0.88)
amp 12p13 33	112 (25%)	337	0.246 (0.529)	0.268 (0.556)	0.218 (0.495)	0.153 (0.396)	0.266 (0.552)	0.752 (0.908)	0.743 (0.906)	1 (1.00)	0.875 (0.996)	0.244 (0.528)	0.376 (0.661)	0.519 (0.788)	0.575 (0.843)
amp 17p11 2	44 (10%)	405	0.588 (0.843)	0.613 (0.866)	0.587 (0.843)	0.472 (0.752)	0.635 (0.878)	0.65 (0.883)	0.634 (0.878)	1 (1.00)	1 (1.00)	0.859 (0.991)	0.68 (0.892)	0.177 (0.431)	1 (1.00)
amp 19q13 11	95 (21%)	354	0.292 (0.587)	0.953 (1.00)	0.717 (0.904)	0.471 (0.752)	0.112 (0.324)	0.233 (0.516)	0.107 (0.313)	0.417 (0.697)	0.741 (0.906)	0.868 (0.993)	0.734 (0.906)	0.972 (1.00)	1 (1.00)
del 2p21	17 (4%)	432	0.96 (1.00)	0.456 (0.738)	0.177 (0.431)	0.647 (0.883)	0.406 (0.686)	0.328 (0.613)	0.805 (0.952)	1 (1.00)	0.488 (0.767)	0.663 (0.89)	0.464 (0.748)	0.607 (0.862)	0.126 (0.35)
del 3q26 31	46 (10%)	403	0.908 (1.00)	0.43 (0.713)	0.277 (0.57)	0.276 (0.57)	0.194 (0.46)	0.263 (0.548)	0.535 (0.807)	0.606 (0.862)	0.175 (0.429)	0.836 (0.975)	0.278 (0.57)	0.587 (0.843)	1 (1.00)

'amp_2q33.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.012 (Fisher's exact test), Q value = 0.069

Table S1. Gene #1: 'amp_2q33.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 1(2Q33.1) MUTATED	43	23	26
AMP PEAK 1(2Q33.1) WILD-TYPE	219	82	56

Figure S1. Get High-res Image Gene #1: 'amp_2q33.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_2q33.1' versus 'RESIDUAL_TUMOR'

P value = 0.0472 (Fisher's exact test), Q value = 0.18

Table S2. Gene #1: 'amp_2q33.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
AMP PEAK 1(2Q33.1) MUTATED	59	3	6	6
AMP PEAK 1(2Q33.1) WILD-TYPE	264	1	19	19

Figure S2. Get High-res Image Gene #1: 'amp_2q33.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_2q33.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0105 (Wilcoxon-test), Q value = 0.062

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

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 1(2Q33.1) MUTATED	89	2.8 (4.4)
AMP PEAK 1(2Q33.1) WILD-TYPE	335	1.9 (4.4)

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

'amp_5p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0326 (Fisher's exact test), Q value = 0.14

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

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 2(5P13.2) MUTATED	42	20	24
AMP PEAK 2(5P13.2) WILD-TYPE	220	85	58

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

'amp_5p13.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0771 (Fisher's exact test), Q value = 0.25

Table S5. Gene #2: 'amp_5p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 2(5P13.2) MUTATED	55	17
AMP PEAK 2(5P13.2) WILD-TYPE	273	47

Figure S5. Get High-res Image Gene #2: 'amp_5p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_5p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0177 (Wilcoxon-test), Q value = 0.089

Table S6. Gene #2: 'amp_5p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 2(5P13.2) MUTATED	83	3.0 (4.6)
AMP PEAK 2(5P13.2) WILD-TYPE	341	1.9 (4.4)

Figure S6. Get High-res Image Gene #2: 'amp_5p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_6p21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0351 (Fisher's exact test), Q value = 0.14

Table S7. Gene #3: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 3(6P21.1) MUTATED	13	0	2	24	1	0	2	4	15	15	10	6	1
AMP PEAK 3(6P21.1) WILD-TYPE	61	1	27	108	9	1	18	4	44	26	35	11	1

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

'amp_6p21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00701 (Fisher's exact test), Q value = 0.047

Table S8. Gene #3: 'amp_6p21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 3(6P21.1) MUTATED	46	22	28
AMP PEAK 3(6P21.1) WILD-TYPE	216	83	54

Figure S8. Get High-res Image Gene #3: 'amp_6p21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_6p21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00674 (Wilcoxon-test), Q value = 0.046

Table S9. Gene #3: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 3(6P21.1) MUTATED	93	3.3 (5.6)
AMP PEAK 3(6P21.1) WILD-TYPE	331	1.7 (4.0)

Figure S9. Get High-res Image Gene #3: 'amp_6p21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_8q24.21' versus 'YEARS_TO_BIRTH'

P value = 0.0558 (Wilcoxon-test), Q value = 0.19

Table S10. Gene #6: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
AMP PEAK 6(8Q24.21) MUTATED	257	66.0 (12.9)
AMP PEAK 6(8Q24.21) WILD-TYPE	190	68.1 (13.3)

Figure S10. Get High-res Image Gene #6: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q24.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0293 (Fisher's exact test), Q value = 0.13

Table S11. Gene #6: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 6(8Q24.21) MUTATED	41	0	19	68	3	1	9	7	34	24	33	13	0
AMP PEAK 6(8Q24.21) WILD-TYPE	33	1	10	64	7	0	11	1	25	17	12	4	2

Figure S11. Get High-res Image Gene #6: 'amp_8q24.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_8q24.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.0128 (Fisher's exact test), Q value = 0.071

Table S12. Gene #6: 'amp_8q24.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 6(8Q24.21) MUTATED	180	46
AMP PEAK 6(8Q24.21) WILD-TYPE	148	18

Figure S12. Get High-res Image Gene #6: 'amp_8q24.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_8q24.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.0376 (Fisher's exact test), Q value = 0.15

Table S13. Gene #6: 'amp_8q24.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 6(8Q24.21) MUTATED	228	28
AMP PEAK 6(8Q24.21) WILD-TYPE	154	34

Figure S13. Get High-res Image Gene #6: 'amp_8q24.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.0101 (Wilcoxon-test), Q value = 0.06

Table S14. Gene #7: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
AMP PEAK 7(11P15.5) MUTATED	91	63.9 (12.7)
AMP PEAK 7(11P15.5) WILD-TYPE	356	67.7 (13.0)

Figure S14. Get High-res Image Gene #7: 'amp_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_11p15.5' versus 'PATHOLOGY_N_STAGE'

P value = 0.0501 (Fisher's exact test), Q value = 0.18

Table S15. Gene #7: 'amp_11p15.5' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 7(11P15.5) MUTATED	43	27	21
AMP PEAK 7(11P15.5) WILD-TYPE	219	78	61

Figure S15. Get High-res Image Gene #7: '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 = 0.027

Table S16. Gene #7: 'amp_11p15.5' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 7(11P15.5) MUTATED	85	4
AMP PEAK 7(11P15.5) WILD-TYPE	297	58

Figure S16. Get High-res Image Gene #7: 'amp_11p15.5' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_11p15.5' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0449 (Wilcoxon-test), Q value = 0.17

Table S17. Gene #7: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 7(11P15.5) MUTATED	86	2.8 (6.2)
AMP PEAK 7(11P15.5) WILD-TYPE	338	1.9 (3.9)

Figure S17. Get High-res Image Gene #7: 'amp_11p15.5' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q12.13' versus 'PATHOLOGIC_STAGE'

P value = 0.00061 (Fisher's exact test), Q value = 0.0087

Table S18. Gene #9: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 9(13Q12.13) MUTATED	43	0	15	69	4	1	11	8	40	26	37	14	0
AMP PEAK 9(13Q12.13) WILD-TYPE	31	1	14	63	6	0	9	0	19	15	8	3	2

Figure S18. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_N_STAGE'

P value = 0.00137 (Fisher's exact test), Q value = 0.015

Table S19. Gene #9: 'amp_13q12.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 9(13Q12.13) MUTATED	142	76	57
AMP PEAK 9(13Q12.13) WILD-TYPE	120	29	25

Figure S19. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_13q12.13' versus 'PATHOLOGY_M_STAGE'

P value = 0.00114 (Fisher's exact test), Q value = 0.013

Table S20. Gene #9: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 9(13Q12.13) MUTATED	191	51
AMP PEAK 9(13Q12.13) WILD-TYPE	137	13

Figure S20. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q12.13' versus 'HISTOLOGICAL_TYPE'

P value = 1.77e-07 (Fisher's exact test), Q value = 1.9e-05

Table S21. Gene #9: 'amp_13q12.13' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 9(13Q12.13) MUTATED	254	19
AMP PEAK 9(13Q12.13) WILD-TYPE	128	43

Figure S21. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_13q12.13' versus 'RESIDUAL_TUMOR'

P value = 0.0275 (Fisher's exact test), Q value = 0.12

Table S22. Gene #9: 'amp_13q12.13' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
AMP PEAK 9(13Q12.13) MUTATED	195	2	20	10
AMP PEAK 9(13Q12.13) WILD-TYPE	128	2	5	15

Figure S22. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_13q12.13' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0023 (Wilcoxon-test), Q value = 0.022

Table S23. Gene #9: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 9(13Q12.13) MUTATED	265	2.4 (4.8)
AMP PEAK 9(13Q12.13) WILD-TYPE	159	1.5 (3.7)

Figure S23. Get High-res Image Gene #9: 'amp_13q12.13' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_13q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00019 (Fisher's exact test), Q value = 0.0042

Table S24. Gene #10: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 10(13Q22.1) MUTATED	45	0	16	66	3	1	12	8	41	28	36	14	0
AMP PEAK 10(13Q22.1) WILD-TYPE	29	1	13	66	7	0	8	0	18	13	9	3	2

Figure S24. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00023 (Fisher's exact test), Q value = 0.0048

Table S25. Gene #10: 'amp_13q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 10(13Q22.1) MUTATED	141	78	58
AMP PEAK 10(13Q22.1) WILD-TYPE	121	27	24

Figure S25. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_13q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00306 (Fisher's exact test), Q value = 0.027

Table S26. Gene #10: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 10(13Q22.1) MUTATED	192	50
AMP PEAK 10(13Q22.1) WILD-TYPE	136	14

Figure S26. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1.68e-07 (Fisher's exact test), Q value = 1.9e-05

Table S27. Gene #10: 'amp_13q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 10(13Q22.1) MUTATED	255	19
AMP PEAK 10(13Q22.1) WILD-TYPE	127	43

Figure S27. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_13q22.1' versus 'RESIDUAL_TUMOR'

P value = 0.0571 (Fisher's exact test), Q value = 0.2

Table S28. Gene #10: 'amp_13q22.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
AMP PEAK 10(13Q22.1) MUTATED	196	2	19	10
AMP PEAK 10(13Q22.1) WILD-TYPE	127	2	6	15

Figure S28. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_13q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0021 (Wilcoxon-test), Q value = 0.021

Table S29. Gene #10: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 10(13Q22.1) MUTATED	269	2.4 (4.8)
AMP PEAK 10(13Q22.1) WILD-TYPE	155	1.5 (3.7)

Figure S29. Get High-res Image Gene #10: 'amp_13q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16p11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00059 (Fisher's exact test), Q value = 0.0087

Table S30. Gene #11: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 11(16P11.2) MUTATED	14	1	3	30	1	0	6	7	19	17	15	5	1
AMP PEAK 11(16P11.2) WILD-TYPE	60	0	26	102	9	1	14	1	40	24	30	12	1

Figure S30. Get High-res Image Gene #11: 'amp_16p11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_16p11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0066

Table S31. Gene #11: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 11(16P11.2) MUTATED	55	37	33
AMP PEAK 11(16P11.2) WILD-TYPE	207	68	49

Figure S31. Get High-res Image Gene #11: 'amp_16p11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0019 (Fisher's exact test), Q value = 0.019

Table S32. Gene #11: 'amp_16p11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 11(16P11.2) MUTATED	115	7
AMP PEAK 11(16P11.2) WILD-TYPE	267	55

Figure S32. Get High-res Image Gene #11: 'amp_16p11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_16p11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000156 (Wilcoxon-test), Q value = 0.0037

Table S33. Gene #11: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 11(16P11.2) MUTATED	119	3.2 (6.2)
AMP PEAK 11(16P11.2) WILD-TYPE	305	1.6 (3.4)

Figure S33. Get High-res Image Gene #11: 'amp_16p11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_16q12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0066

Table S34. Gene #12: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 12(16Q12.1) MUTATED	14	1	3	23	1	0	6	7	19	15	11	4	1
AMP PEAK 12(16Q12.1) WILD-TYPE	60	0	26	109	9	1	14	1	40	26	34	13	1

Figure S34. Get High-res Image Gene #12: 'amp_16q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_16q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00104 (Fisher's exact test), Q value = 0.013

Table S35. Gene #12: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 12(16Q12.1) MUTATED	48	35	28
AMP PEAK 12(16Q12.1) WILD-TYPE	214	70	54

Figure S35. Get High-res Image Gene #12: 'amp_16q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_16q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00236 (Fisher's exact test), Q value = 0.022

Table S36. Gene #12: 'amp_16q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 12(16Q12.1) MUTATED	103	6
AMP PEAK 12(16Q12.1) WILD-TYPE	279	56

Figure S36. Get High-res Image Gene #12: 'amp_16q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_16q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000439 (Wilcoxon-test), Q value = 0.0075

Table S37. Gene #12: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 12(16Q12.1) MUTATED	106	3.2 (6.2)
AMP PEAK 12(16Q12.1) WILD-TYPE	318	1.7 (3.6)

Figure S37. Get High-res Image Gene #12: 'amp_16q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_17q12' versus 'PATHOLOGY_T_STAGE'

P value = 0.0646 (Fisher's exact test), Q value = 0.22

Table S38. Gene #14: 'amp_17q12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	55
AMP PEAK 14(17Q12) MUTATED	5	13	85	11
AMP PEAK 14(17Q12) WILD-TYPE	6	64	220	44

Figure S38. Get High-res Image Gene #14: 'amp_17q12' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'amp_17q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00387 (Fisher's exact test), Q value = 0.03

Table S39. Gene #14: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 14(17Q12) MUTATED	70	25
AMP PEAK 14(17Q12) WILD-TYPE	258	39

Figure S39. Get High-res Image Gene #14: 'amp_17q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_17q12' versus 'ETHNICITY'

P value = 0.0575 (Fisher's exact test), Q value = 0.2

Table S40. Gene #14: 'amp_17q12' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
AMP PEAK 14(17Q12) MUTATED	3	69
AMP PEAK 14(17Q12) WILD-TYPE	1	200

Figure S40. Get High-res Image Gene #14: 'amp_17q12' versus Clinical Feature #13: 'ETHNICITY'

'amp_17q24.1' versus 'Time to Death'

P value = 0.0345 (logrank test), Q value = 0.14

Table S41. Gene #15: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
AMP PEAK 15(17Q24.1) MUTATED	103	15	0.9 - 148.0 (24.3)
AMP PEAK 15(17Q24.1) WILD-TYPE	333	86	0.0 - 140.4 (21.8)

Figure S41. Get High-res Image Gene #15: 'amp_17q24.1' versus Clinical Feature #1: 'Time to Death'

'amp_17q24.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0767 (Fisher's exact test), Q value = 0.25

Table S42. Gene #15: 'amp_17q24.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 15(17Q24.1) MUTATED	96	9
AMP PEAK 15(17Q24.1) WILD-TYPE	286	53

Figure S42. Get High-res Image Gene #15: 'amp_17q24.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_17q24.1' versus 'ETHNICITY'

P value = 0.049 (Fisher's exact test), Q value = 0.18

Table S43. Gene #15: 'amp_17q24.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
AMP PEAK 15(17Q24.1) MUTATED	3	65
AMP PEAK 15(17Q24.1) WILD-TYPE	1	204

Figure S43. Get High-res Image Gene #15: 'amp_17q24.1' versus Clinical Feature #13: 'ETHNICITY'

'amp_20p12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.016 (Fisher's exact test), Q value = 0.084

Table S44. Gene #17: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 17(20P12.1) MUTATED	36	1	10	48	3	0	7	6	21	17	30	9	1
AMP PEAK 17(20P12.1) WILD-TYPE	38	0	19	84	7	1	13	2	38	24	15	8	1

Figure S44. Get High-res Image Gene #17: 'amp_20p12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20p12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000819 (Fisher's exact test), Q value = 0.01

Table S45. Gene #17: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 17(20P12.1) MUTATED	128	40
AMP PEAK 17(20P12.1) WILD-TYPE	200	24

Figure S45. Get High-res Image Gene #17: 'amp_20p12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p12.1' versus 'RADIATION_THERAPY'

P value = 0.0447 (Fisher's exact test), Q value = 0.17

Table S46. Gene #17: 'amp_20p12.1' versus Clinical Feature #8: 'RADIATION_THERAPY'

nPatients	NO	YES
ALL	370	9
AMP PEAK 17(20P12.1) MUTATED	158	7
AMP PEAK 17(20P12.1) WILD-TYPE	212	2

Figure S46. Get High-res Image Gene #17: 'amp_20p12.1' versus Clinical Feature #8: 'RADIATION_THERAPY'

'amp_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0376 (Fisher's exact test), Q value = 0.15

Table S47. Gene #17: 'amp_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 17(20P12.1) MUTATED	174	19
AMP PEAK 17(20P12.1) WILD-TYPE	208	43

Figure S47. Get High-res Image Gene #17: 'amp_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20p11.23' versus 'PATHOLOGIC_STAGE'

P value = 0.00081 (Fisher's exact test), Q value = 0.01

Table S48. Gene #18: 'amp_20p11.23' 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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 18(20P11.23) MUTATED	35	1	11	57	3	0	9	8	25	19	34	10	1
AMP PEAK 18(20P11.23) WILD-TYPE	39	0	18	75	7	1	11	0	34	22	11	7	1

Figure S48. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20p11.23' versus 'PATHOLOGY_N_STAGE'

P value = 0.052 (Fisher's exact test), Q value = 0.18

Table S49. Gene #18: 'amp_20p11.23' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 18(20P11.23) MUTATED	116	61	42
AMP PEAK 18(20P11.23) WILD-TYPE	146	44	40

Figure S49. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20p11.23' versus 'PATHOLOGY_M_STAGE'

P value = 0.000326 (Fisher's exact test), Q value = 0.0064

Table S50. Gene #18: 'amp_20p11.23' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 18(20P11.23) MUTATED	148	45
AMP PEAK 18(20P11.23) WILD-TYPE	180	19

Figure S50. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p11.23' versus 'HISTOLOGICAL_TYPE'

P value = 0.0132 (Fisher's exact test), Q value = 0.073

Table S51. Gene #18: 'amp_20p11.23' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 18(20P11.23) MUTATED	197	21
AMP PEAK 18(20P11.23) WILD-TYPE	185	41

Figure S51. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20p11.23' versus 'RESIDUAL_TUMOR'

P value = 0.0159 (Fisher's exact test), Q value = 0.084

Table S52. Gene #18: 'amp_20p11.23' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
AMP PEAK 18(20P11.23) MUTATED	149	3	19	11
AMP PEAK 18(20P11.23) WILD-TYPE	174	1	6	14

Figure S52. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_20p11.23' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0775 (Wilcoxon-test), Q value = 0.25

Table S53. Gene #18: 'amp_20p11.23' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 18(20P11.23) MUTATED	208	2.3 (4.9)
AMP PEAK 18(20P11.23) WILD-TYPE	216	1.8 (3.9)

Figure S53. Get High-res Image Gene #18: 'amp_20p11.23' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20p11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.00174 (Fisher's exact test), Q value = 0.018

Table S54. Gene #19: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 19(20P11.21) MUTATED	43	1	15	66	3	0	8	8	29	22	36	11	1
AMP PEAK 19(20P11.21) WILD-TYPE	31	0	14	66	7	1	12	0	30	19	9	6	1

Figure S54. Get High-res Image Gene #19: 'amp_20p11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20p11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.000572 (Fisher's exact test), Q value = 0.0087

Table S55. Gene #19: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 19(20P11.21) MUTATED	170	48
AMP PEAK 19(20P11.21) WILD-TYPE	158	16

Figure S55. Get High-res Image Gene #19: 'amp_20p11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20p11.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00143 (Fisher's exact test), Q value = 0.015

Table S56. Gene #19: 'amp_20p11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 19(20P11.21) MUTATED	226	23
AMP PEAK 19(20P11.21) WILD-TYPE	156	39

Figure S56. Get High-res Image Gene #19: 'amp_20p11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20p11.21' versus 'RESIDUAL_TUMOR'

P value = 0.0408 (Fisher's exact test), Q value = 0.16

Table S57. Gene #19: 'amp_20p11.21' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
AMP PEAK 19(20P11.21) MUTATED	174	3	20	12
AMP PEAK 19(20P11.21) WILD-TYPE	149	1	5	13

Figure S57. Get High-res Image Gene #19: 'amp_20p11.21' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'amp_20q11.21' versus 'PATHOLOGIC_STAGE'

P value = 0.0147 (Fisher's exact test), Q value = 0.079

Table S58. Gene #20: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 20(20Q11.21) MUTATED	53	1	17	85	4	1	14	8	43	32	39	15	1
AMP PEAK 20(20Q11.21) WILD-TYPE	21	0	12	47	6	0	6	0	16	9	6	2	1

Figure S58. Get High-res Image Gene #20: 'amp_20q11.21' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_N_STAGE'

P value = 0.00784 (Fisher's exact test), Q value = 0.052

Table S59. Gene #20: 'amp_20q11.21' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 20(20Q11.21) MUTATED	173	85	63
AMP PEAK 20(20Q11.21) WILD-TYPE	89	20	19

Figure S59. Get High-res Image Gene #20: 'amp_20q11.21' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q11.21' versus 'PATHOLOGY_M_STAGE'

P value = 0.00596 (Fisher's exact test), Q value = 0.043

Table S60. Gene #20: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 20(20Q11.21) MUTATED	227	55
AMP PEAK 20(20Q11.21) WILD-TYPE	101	9

Figure S60. Get High-res Image Gene #20: 'amp_20q11.21' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 2.02e-07 (Fisher's exact test), Q value = 1.9e-05

Table S61. Gene #20: 'amp_20q11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 20(20Q11.21) MUTATED	291	26
AMP PEAK 20(20Q11.21) WILD-TYPE	91	36

Figure S61. Get High-res Image Gene #20: 'amp_20q11.21' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q11.21' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0189 (Wilcoxon-test), Q value = 0.094

Table S62. Gene #20: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 20(20Q11.21) MUTATED	307	2.3 (4.7)
AMP PEAK 20(20Q11.21) WILD-TYPE	117	1.6 (3.5)

Figure S62. Get High-res Image Gene #20: 'amp_20q11.21' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q12' versus 'PATHOLOGIC_STAGE'

P value = 0.00602 (Fisher's exact test), Q value = 0.043

Table S63. Gene #21: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 21(20Q12) MUTATED	53	1	17	86	4	1	13	8	43	32	39	16	1
AMP PEAK 21(20Q12) WILD-TYPE	21	0	12	46	6	0	7	0	16	9	6	1	1

Figure S63. Get High-res Image Gene #21: 'amp_20q12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q12' versus 'PATHOLOGY_N_STAGE'

P value = 0.0104 (Fisher's exact test), Q value = 0.062

Table S64. Gene #21: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 21(20Q12) MUTATED	174	85	63
AMP PEAK 21(20Q12) WILD-TYPE	88	20	19

Figure S64. Get High-res Image Gene #21: 'amp_20q12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q12' versus 'PATHOLOGY_M_STAGE'

P value = 0.00217 (Fisher's exact test), Q value = 0.021

Table S65. Gene #21: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 21(20Q12) MUTATED	227	56
AMP PEAK 21(20Q12) WILD-TYPE	101	8

Figure S65. Get High-res Image Gene #21: 'amp_20q12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q12' versus 'HISTOLOGICAL_TYPE'

P value = 2.8e-08 (Fisher's exact test), Q value = 4.8e-06

Table S66. Gene #21: 'amp_20q12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 21(20Q12) MUTATED	293	25
AMP PEAK 21(20Q12) WILD-TYPE	89	37

Figure S66. Get High-res Image Gene #21: 'amp_20q12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0198 (Wilcoxon-test), Q value = 0.098

Table S67. Gene #21: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 21(20Q12) MUTATED	307	2.3 (4.7)
AMP PEAK 21(20Q12) WILD-TYPE	117	1.6 (3.6)

Figure S67. Get High-res Image Gene #21: 'amp_20q12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'amp_20q13.12' versus 'PATHOLOGIC_STAGE'

P value = 0.00309 (Fisher's exact test), Q value = 0.027

Table S68. Gene #22: '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	29	132	10	1	20	8	59	41	45	17	2
AMP PEAK 22(20Q13.12) MUTATED	52	1	18	86	4	1	13	8	43	33	40	16	1
AMP PEAK 22(20Q13.12) WILD-TYPE	22	0	11	46	6	0	7	0	16	8	5	1	1

Figure S68. Get High-res Image Gene #22: 'amp_20q13.12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_N_STAGE'

P value = 0.00562 (Fisher's exact test), Q value = 0.042

Table S69. Gene #22: 'amp_20q13.12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
AMP PEAK 22(20Q13.12) MUTATED	174	85	65
AMP PEAK 22(20Q13.12) WILD-TYPE	88	20	17

Figure S69. Get High-res Image Gene #22: 'amp_20q13.12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'amp_20q13.12' versus 'PATHOLOGY_M_STAGE'

P value = 0.0011 (Fisher's exact test), Q value = 0.013

Table S70. Gene #22: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
AMP PEAK 22(20Q13.12) MUTATED	228	57
AMP PEAK 22(20Q13.12) WILD-TYPE	100	7

Figure S70. Get High-res Image Gene #22: 'amp_20q13.12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'amp_20q13.12' versus 'HISTOLOGICAL_TYPE'

P value = 7.27e-08 (Fisher's exact test), Q value = 1e-05

Table S71. Gene #22: 'amp_20q13.12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
AMP PEAK 22(20Q13.12) MUTATED	294	26
AMP PEAK 22(20Q13.12) WILD-TYPE	88	36

Figure S71. Get High-res Image Gene #22: 'amp_20q13.12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'amp_20q13.12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00643 (Wilcoxon-test), Q value = 0.045

Table S72. Gene #22: 'amp_20q13.12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
AMP PEAK 22(20Q13.12) MUTATED	309	2.3 (4.8)
AMP PEAK 22(20Q13.12) WILD-TYPE	115	1.4 (3.4)

Figure S72. Get High-res Image Gene #22: 'amp_20q13.12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p36.11' versus 'Time to Death'

P value = 0.0473 (logrank test), Q value = 0.18

Table S73. Gene #23: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 1(1P36.11) MUTATED	162	44	0.5 - 139.2 (22.0)
DEL PEAK 1(1P36.11) WILD-TYPE	274	57	0.0 - 148.0 (22.1)

Figure S73. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #1: 'Time to Death'

'del_1p36.11' versus 'PATHOLOGIC_STAGE'

P value = 0.00042 (Fisher's exact test), Q value = 0.0074

Table S74. Gene #23: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 1(1P36.11) MUTATED	21	0	6	46	2	1	7	4	18	18	30	10	0
DEL PEAK 1(1P36.11) WILD-TYPE	53	1	23	86	8	0	13	4	41	23	15	7	2

Figure S74. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p36.11' versus 'PATHOLOGY_N_STAGE'

P value = 0.0172 (Fisher's exact test), Q value = 0.088

Table S75. Gene #23: 'del_1p36.11' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 1(1P36.11) MUTATED	84	43	40
DEL PEAK 1(1P36.11) WILD-TYPE	178	62	42

Figure S75. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p36.11' versus 'PATHOLOGY_M_STAGE'

P value = 1.79e-05 (Fisher's exact test), Q value = 0.00064

Table S76. Gene #23: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 1(1P36.11) MUTATED	109	40
DEL PEAK 1(1P36.11) WILD-TYPE	219	24

Figure S76. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p36.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.000585 (Fisher's exact test), Q value = 0.0087

Table S77. Gene #23: 'del_1p36.11' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 1(1P36.11) MUTATED	155	11
DEL PEAK 1(1P36.11) WILD-TYPE	227	51

Figure S77. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_1p36.11' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00356 (Wilcoxon-test), Q value = 0.029

Table S78. Gene #23: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 1(1P36.11) MUTATED	156	2.9 (5.7)
DEL PEAK 1(1P36.11) WILD-TYPE	268	1.6 (3.4)

Figure S78. Get High-res Image Gene #23: 'del_1p36.11' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p33' versus 'Time to Death'

P value = 0.00283 (logrank test), Q value = 0.026

Table S79. Gene #24: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 2(1P33) MUTATED	119	37	0.0 - 92.8 (21.0)
DEL PEAK 2(1P33) WILD-TYPE	317	64	0.0 - 148.0 (23.0)

Figure S79. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #1: 'Time to Death'

'del_1p33' versus 'PATHOLOGIC_STAGE'

P value = 0.0232 (Fisher's exact test), Q value = 0.11

Table S80. Gene #24: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 2(1P33) MUTATED	12	0	6	35	1	0	5	3	15	15	23	4	0
DEL PEAK 2(1P33) WILD-TYPE	62	1	23	97	9	1	15	5	44	26	22	13	2

Figure S80. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0294 (Fisher's exact test), Q value = 0.13

Table S81. Gene #24: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 2(1P33) MUTATED	60	33	30
DEL PEAK 2(1P33) WILD-TYPE	202	72	52

Figure S81. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p33' versus 'PATHOLOGY_M_STAGE'

P value = 0.00541 (Fisher's exact test), Q value = 0.04

Table S82. Gene #24: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 2(1P33) MUTATED	80	27
DEL PEAK 2(1P33) WILD-TYPE	248	37

Figure S82. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0138 (Fisher's exact test), Q value = 0.075

Table S83. Gene #24: 'del_1p33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 2(1P33) MUTATED	113	9
DEL PEAK 2(1P33) WILD-TYPE	269	53

Figure S83. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_1p33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00833 (Wilcoxon-test), Q value = 0.054

Table S84. Gene #24: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 2(1P33) MUTATED	115	3.1 (6.4)
DEL PEAK 2(1P33) WILD-TYPE	309	1.7 (3.4)

Figure S84. Get High-res Image Gene #24: 'del_1p33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_1p13.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00654 (Fisher's exact test), Q value = 0.046

Table S85. Gene #25: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 3(1P13.1) MUTATED	12	0	5	32	1	0	5	3	15	14	24	3	0
DEL PEAK 3(1P13.1) WILD-TYPE	62	1	24	100	9	1	15	5	44	27	21	14	2

Figure S85. Get High-res Image Gene #25: 'del_1p13.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_1p13.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00958 (Fisher's exact test), Q value = 0.059

Table S86. Gene #25: 'del_1p13.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 3(1P13.1) MUTATED	56	31	31
DEL PEAK 3(1P13.1) WILD-TYPE	206	74	51

Figure S86. Get High-res Image Gene #25: 'del_1p13.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_1p13.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00306 (Fisher's exact test), Q value = 0.027

Table S87. Gene #25: 'del_1p13.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 3(1P13.1) MUTATED	77	27
DEL PEAK 3(1P13.1) WILD-TYPE	251	37

Figure S87. Get High-res Image Gene #25: 'del_1p13.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_1p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.045 (Fisher's exact test), Q value = 0.17

Table S88. Gene #25: 'del_1p13.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 3(1P13.1) MUTATED	108	10
DEL PEAK 3(1P13.1) WILD-TYPE	274	52

Figure S88. Get High-res Image Gene #25: 'del_1p13.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_1p13.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00107 (Wilcoxon-test), Q value = 0.013

Table S89. Gene #25: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 3(1P13.1) MUTATED	108	3.0 (4.7)
DEL PEAK 3(1P13.1) WILD-TYPE	316	1.8 (4.3)

Figure S89. Get High-res Image Gene #25: 'del_1p13.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_2q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00893 (Wilcoxon-test), Q value = 0.056

Table S90. Gene #27: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 5(2Q22.1) MUTATED	22	2.9 (3.2)
DEL PEAK 5(2Q22.1) WILD-TYPE	402	2.0 (4.5)

Figure S90. Get High-res Image Gene #27: 'del_2q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_2q22.1' versus 'RACE'

P value = 0.00605 (Fisher's exact test), Q value = 0.043

Table S91. Gene #27: 'del_2q22.1' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	59	212
DEL PEAK 5(2Q22.1) MUTATED	1	2	1	9
DEL PEAK 5(2Q22.1) WILD-TYPE	0	9	58	203

Figure S91. Get High-res Image Gene #27: 'del_2q22.1' versus Clinical Feature #12: 'RACE'

'del_3p26.1' versus 'Time to Death'

P value = 0.0786 (logrank test), Q value = 0.25

Table S92. Gene #28: 'del_3p26.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 6(3P26.1) MUTATED	70	17	0.2 - 85.0 (15.1)
DEL PEAK 6(3P26.1) WILD-TYPE	366	84	0.0 - 148.0 (23.7)

Figure S92. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #1: 'Time to Death'

'del_3p26.1' versus 'PATHOLOGIC_STAGE'

P value = 0.034 (Fisher's exact test), Q value = 0.14

Table S93. Gene #28: 'del_3p26.1' 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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 6(3P26.1) MUTATED	6	0	2	19	0	0	3	2	11	7	16	4	0
DEL PEAK 6(3P26.1) WILD-TYPE	68	1	27	113	10	1	17	6	48	34	29	13	2

Figure S93. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_3p26.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00878 (Fisher's exact test), Q value = 0.056

Table S94. Gene #28: 'del_3p26.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 6(3P26.1) MUTATED	30	22	19
DEL PEAK 6(3P26.1) WILD-TYPE	232	83	63

Figure S94. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_3p26.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000589 (Fisher's exact test), Q value = 0.0087

Table S95. Gene #28: 'del_3p26.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 6(3P26.1) MUTATED	42	20
DEL PEAK 6(3P26.1) WILD-TYPE	286	44

Figure S95. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_3p26.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.025 (Fisher's exact test), Q value = 0.11

Table S96. Gene #28: 'del_3p26.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 6(3P26.1) MUTATED	67	4
DEL PEAK 6(3P26.1) WILD-TYPE	315	58

Figure S96. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_3p26.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0116 (Wilcoxon-test), Q value = 0.068

Table S97. Gene #28: 'del_3p26.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 6(3P26.1) MUTATED	67	3.1 (5.7)
DEL PEAK 6(3P26.1) WILD-TYPE	357	1.9 (4.2)

Figure S97. Get High-res Image Gene #28: 'del_3p26.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_3p14.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0726 (Fisher's exact test), Q value = 0.24

Table S98. Gene #29: 'del_3p14.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 7(3P14.2) MUTATED	42	23	22
DEL PEAK 7(3P14.2) WILD-TYPE	220	82	60

Figure S98. Get High-res Image Gene #29: 'del_3p14.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_3p14.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0533 (Fisher's exact test), Q value = 0.19

Table S99. Gene #29: 'del_3p14.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 7(3P14.2) MUTATED	56	18
DEL PEAK 7(3P14.2) WILD-TYPE	272	46

Figure S99. Get High-res Image Gene #29: 'del_3p14.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_3p14.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0248 (Wilcoxon-test), Q value = 0.11

Table S100. Gene #29: 'del_3p14.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 7(3P14.2) MUTATED	83	3.3 (6.0)
DEL PEAK 7(3P14.2) WILD-TYPE	341	1.8 (3.9)

Figure S100. Get High-res Image Gene #29: 'del_3p14.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4p16.2' versus 'Time to Death'

P value = 0.0307 (logrank test), Q value = 0.13

Table S101. Gene #31: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 9(4P16.2) MUTATED	133	37	0.2 - 91.8 (22.0)
DEL PEAK 9(4P16.2) WILD-TYPE	303	64	0.0 - 148.0 (22.1)

Figure S101. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #1: 'Time to Death'

'del_4p16.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00063 (Fisher's exact test), Q value = 0.0089

Table S102. Gene #31: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 9(4P16.2) MUTATED	16	0	7	33	3	0	4	5	16	17	27	7	0
DEL PEAK 9(4P16.2) WILD-TYPE	58	1	22	99	7	1	16	3	43	24	18	10	2

Figure S102. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_4p16.2' versus 'PATHOLOGY_N_STAGE'

P value = 8e-04 (Fisher's exact test), Q value = 0.01

Table S103. Gene #31: 'del_4p16.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 9(4P16.2) MUTATED	63	39	36
DEL PEAK 9(4P16.2) WILD-TYPE	199	66	46

Figure S103. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4p16.2' versus 'PATHOLOGY_M_STAGE'

P value = 4.25e-05 (Fisher's exact test), Q value = 0.0014

Table S104. Gene #31: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 9(4P16.2) MUTATED	85	34
DEL PEAK 9(4P16.2) WILD-TYPE	243	30

Figure S104. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4p16.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0173 (Fisher's exact test), Q value = 0.088

Table S105. Gene #31: 'del_4p16.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 9(4P16.2) MUTATED	126	11
DEL PEAK 9(4P16.2) WILD-TYPE	256	51

Figure S105. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_4p16.2' versus 'RESIDUAL_TUMOR'

P value = 0.0791 (Fisher's exact test), Q value = 0.25

Table S106. Gene #31: 'del_4p16.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
DEL PEAK 9(4P16.2) MUTATED	98	1	13	5
DEL PEAK 9(4P16.2) WILD-TYPE	225	3	12	20

Figure S106. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_4p16.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00035 (Wilcoxon-test), Q value = 0.0066

Table S107. Gene #31: 'del_4p16.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 9(4P16.2) MUTATED	132	2.9 (4.6)
DEL PEAK 9(4P16.2) WILD-TYPE	292	1.7 (4.3)

Figure S107. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4p16.2' versus 'ETHNICITY'

P value = 0.077 (Fisher's exact test), Q value = 0.25

Table S108. Gene #31: 'del_4p16.2' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
DEL PEAK 9(4P16.2) MUTATED	3	77
DEL PEAK 9(4P16.2) WILD-TYPE	1	192

Figure S108. Get High-res Image Gene #31: 'del_4p16.2' versus Clinical Feature #13: 'ETHNICITY'

'del_4q22.1' versus 'Time to Death'

P value = 0.0395 (logrank test), Q value = 0.16

Table S109. Gene #32: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 10(4Q22.1) MUTATED	147	41	0.0 - 148.0 (21.9)
DEL PEAK 10(4Q22.1) WILD-TYPE	289	60	0.0 - 140.4 (22.1)

Figure S109. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #1: 'Time to Death'

'del_4q22.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00979 (Fisher's exact test), Q value = 0.06

Table S110. Gene #32: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 10(4Q22.1) MUTATED	14	0	8	40	3	0	4	5	23	20	22	6	1
DEL PEAK 10(4Q22.1) WILD-TYPE	60	1	21	92	7	1	16	3	36	21	23	11	1

Figure S110. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_4q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 8e-04 (Fisher's exact test), Q value = 0.01

Table S111. Gene #32: 'del_4q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 10(4Q22.1) MUTATED	69	44	37
DEL PEAK 10(4Q22.1) WILD-TYPE	193	61	45

Figure S111. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0204 (Fisher's exact test), Q value = 0.099

Table S112. Gene #32: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 10(4Q22.1) MUTATED	99	29
DEL PEAK 10(4Q22.1) WILD-TYPE	229	35

Figure S112. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00374 (Fisher's exact test), Q value = 0.029

Table S113. Gene #32: 'del_4q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

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

Figure S113. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_4q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000307 (Wilcoxon-test), Q value = 0.0061

Table S114. Gene #32: 'del_4q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 10(4Q22.1) MUTATED	142	2.8 (4.5)
DEL PEAK 10(4Q22.1) WILD-TYPE	282	1.7 (4.4)

Figure S114. Get High-res Image Gene #32: 'del_4q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_4q35.1' versus 'PATHOLOGIC_STAGE'

P value = 0.0482 (Fisher's exact test), Q value = 0.18

Table S115. Gene #33: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 11(4Q35.1) MUTATED	17	0	8	44	2	0	6	5	21	19	24	7	1
DEL PEAK 11(4Q35.1) WILD-TYPE	57	1	21	88	8	1	14	3	38	22	21	10	1

Figure S115. Get High-res Image Gene #33: 'del_4q35.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_4q35.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00321 (Fisher's exact test), Q value = 0.027

Table S116. Gene #33: 'del_4q35.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 11(4Q35.1) MUTATED	75	44	38
DEL PEAK 11(4Q35.1) WILD-TYPE	187	61	44

Figure S116. Get High-res Image Gene #33: 'del_4q35.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_4q35.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00998 (Fisher's exact test), Q value = 0.06

Table S117. Gene #33: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 11(4Q35.1) MUTATED	107	32
DEL PEAK 11(4Q35.1) WILD-TYPE	221	32

Figure S117. Get High-res Image Gene #33: 'del_4q35.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_4q35.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0623 (Fisher's exact test), Q value = 0.21

Table S118. Gene #33: 'del_4q35.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 11(4Q35.1) MUTATED	140	15
DEL PEAK 11(4Q35.1) WILD-TYPE	242	47

Figure S118. Get High-res Image Gene #33: 'del_4q35.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_4q35.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000771 (Wilcoxon-test), Q value = 0.01

Table S119. Gene #33: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 11(4Q35.1) MUTATED	149	2.6 (4.3)
DEL PEAK 11(4Q35.1) WILD-TYPE	275	1.8 (4.5)

Figure S119. Get High-res Image Gene #33: 'del_4q35.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q12.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00355 (Fisher's exact test), Q value = 0.029

Table S120. Gene #34: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 12(5Q12.1) MUTATED	17	0	5	19	1	0	3	5	14	16	13	8	1
DEL PEAK 12(5Q12.1) WILD-TYPE	57	1	24	113	9	1	17	3	45	25	32	9	1

Figure S120. Get High-res Image Gene #34: 'del_5q12.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q12.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0147 (Fisher's exact test), Q value = 0.079

Table S121. Gene #34: 'del_5q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 12(5Q12.1) MUTATED	49	29	27
DEL PEAK 12(5Q12.1) WILD-TYPE	213	76	55

Figure S121. Get High-res Image Gene #34: 'del_5q12.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q12.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.0216 (Fisher's exact test), Q value = 0.1

Table S122. Gene #34: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 12(5Q12.1) MUTATED	67	22
DEL PEAK 12(5Q12.1) WILD-TYPE	261	42

Figure S122. Get High-res Image Gene #34: 'del_5q12.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0356 (Fisher's exact test), Q value = 0.14

Table S123. Gene #34: 'del_5q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 12(5Q12.1) MUTATED	97	8
DEL PEAK 12(5Q12.1) WILD-TYPE	285	54

Figure S123. Get High-res Image Gene #34: 'del_5q12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_5q12.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.006 (Wilcoxon-test), Q value = 0.043

Table S124. Gene #34: 'del_5q12.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 12(5Q12.1) MUTATED	101	2.9 (5.0)
DEL PEAK 12(5Q12.1) WILD-TYPE	323	1.8 (4.2)

Figure S124. Get High-res Image Gene #34: '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 = 0.18

Table S125. Gene #34: 'del_5q12.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
DEL PEAK 12(5Q12.1) MUTATED	3	66
DEL PEAK 12(5Q12.1) WILD-TYPE	1	203

Figure S125. Get High-res Image Gene #34: 'del_5q12.1' versus Clinical Feature #13: 'ETHNICITY'

'del_5q21.1' versus 'PATHOLOGIC_STAGE'

P value = 5e-05 (Fisher's exact test), Q value = 0.0015

Table S126. Gene #35: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 13(5Q21.1) MUTATED	18	0	6	26	0	0	3	7	18	18	17	8	2
DEL PEAK 13(5Q21.1) WILD-TYPE	56	1	23	106	10	1	17	1	41	23	28	9	0

Figure S126. Get High-res Image Gene #35: 'del_5q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00158 (Fisher's exact test), Q value = 0.016

Table S127. Gene #35: 'del_5q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 13(5Q21.1) MUTATED	57	37	32
DEL PEAK 13(5Q21.1) WILD-TYPE	205	68	50

Figure S127. Get High-res Image Gene #35: 'del_5q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00895 (Fisher's exact test), Q value = 0.056

Table S128. Gene #35: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 13(5Q21.1) MUTATED	82	27
DEL PEAK 13(5Q21.1) WILD-TYPE	246	37

Figure S128. Get High-res Image Gene #35: 'del_5q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000501 (Wilcoxon-test), Q value = 0.008

Table S129. Gene #35: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 13(5Q21.1) MUTATED	121	2.9 (4.9)
DEL PEAK 13(5Q21.1) WILD-TYPE	303	1.7 (4.2)

Figure S129. Get High-res Image Gene #35: 'del_5q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_5q21.1' versus 'ETHNICITY'

P value = 0.077 (Fisher's exact test), Q value = 0.25

Table S130. Gene #35: 'del_5q21.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
DEL PEAK 13(5Q21.1) MUTATED	3	77
DEL PEAK 13(5Q21.1) WILD-TYPE	1	192

Figure S130. Get High-res Image Gene #35: 'del_5q21.1' versus Clinical Feature #13: 'ETHNICITY'

'del_5q22.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0045 (Fisher's exact test), Q value = 0.034

Table S131. Gene #36: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 14(5Q22.2) MUTATED	19	0	7	29	0	0	4	6	16	16	19	8	1
DEL PEAK 14(5Q22.2) WILD-TYPE	55	1	22	103	10	1	16	2	43	25	26	9	1

Figure S131. Get High-res Image Gene #36: 'del_5q22.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_5q22.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0416 (Fisher's exact test), Q value = 0.16

Table S132. Gene #36: 'del_5q22.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 14(5Q22.2) MUTATED	64	34	31
DEL PEAK 14(5Q22.2) WILD-TYPE	198	71	51

Figure S132. Get High-res Image Gene #36: 'del_5q22.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_5q22.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00342 (Fisher's exact test), Q value = 0.028

Table S133. Gene #36: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 14(5Q22.2) MUTATED	81	28
DEL PEAK 14(5Q22.2) WILD-TYPE	247	36

Figure S133. Get High-res Image Gene #36: 'del_5q22.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_5q22.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0182 (Wilcoxon-test), Q value = 0.091

Table S134. Gene #36: 'del_5q22.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 14(5Q22.2) MUTATED	122	2.7 (4.8)
DEL PEAK 14(5Q22.2) WILD-TYPE	302	1.8 (4.3)

Figure S134. Get High-res Image Gene #36: 'del_5q22.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_6p25.3' versus 'YEARS_TO_BIRTH'

P value = 0.0502 (Wilcoxon-test), Q value = 0.18

Table S135. Gene #37: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 15(6P25.3) MUTATED	55	69.8 (12.7)
DEL PEAK 15(6P25.3) WILD-TYPE	392	66.5 (13.1)

Figure S135. Get High-res Image Gene #37: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'GENDER'

P value = 0.0443 (Fisher's exact test), Q value = 0.17

Table S136. Gene #37: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	213	236
DEL PEAK 15(6P25.3) MUTATED	19	36
DEL PEAK 15(6P25.3) WILD-TYPE	194	200

Figure S136. Get High-res Image Gene #37: 'del_6p25.3' versus Clinical Feature #7: 'GENDER'

'del_6p25.3' versus 'RACE'

P value = 0.0452 (Fisher's exact test), Q value = 0.17

Table S137. Gene #37: 'del_6p25.3' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	59	212
DEL PEAK 15(6P25.3) MUTATED	0	3	2	26
DEL PEAK 15(6P25.3) WILD-TYPE	1	8	57	186

Figure S137. Get High-res Image Gene #37: 'del_6p25.3' versus Clinical Feature #12: 'RACE'

'del_6q26' versus 'Time to Death'

P value = 0.0238 (logrank test), Q value = 0.11

Table S138. Gene #38: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 16(6Q26) MUTATED	59	19	0.2 - 131.5 (17.8)
DEL PEAK 16(6Q26) WILD-TYPE	377	82	0.0 - 148.0 (23.0)

Figure S138. Get High-res Image Gene #38: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

'del_6q26' versus 'PATHOLOGY_N_STAGE'

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

Table S139. Gene #38: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 16(6Q26) MUTATED	26	14	21
DEL PEAK 16(6Q26) WILD-TYPE	236	91	61

Figure S139. Get High-res Image Gene #38: 'del_6q26' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_6q26' versus 'PATHOLOGY_M_STAGE'

P value = 0.0264 (Fisher's exact test), Q value = 0.12

Table S140. Gene #38: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 16(6Q26) MUTATED	37	14
DEL PEAK 16(6Q26) WILD-TYPE	291	50

Figure S140. Get High-res Image Gene #38: 'del_6q26' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_6q26' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00099 (Wilcoxon-test), Q value = 0.012

Table S141. Gene #38: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 16(6Q26) MUTATED	57	3.5 (4.6)
DEL PEAK 16(6Q26) WILD-TYPE	367	1.9 (4.4)

Figure S141. Get High-res Image Gene #38: 'del_6q26' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_6q26' versus 'RACE'

P value = 0.0433 (Fisher's exact test), Q value = 0.17

Table S142. Gene #38: 'del_6q26' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	59	212
DEL PEAK 16(6Q26) MUTATED	1	3	5	26
DEL PEAK 16(6Q26) WILD-TYPE	0	8	54	186

Figure S142. Get High-res Image Gene #38: 'del_6q26' versus Clinical Feature #12: 'RACE'

'del_7q31.1' versus 'ETHNICITY'

P value = 0.00699 (Fisher's exact test), Q value = 0.047

Table S143. Gene #39: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
DEL PEAK 17(7Q31.1) MUTATED	2	8
DEL PEAK 17(7Q31.1) WILD-TYPE	2	261

Figure S143. Get High-res Image Gene #39: 'del_7q31.1' versus Clinical Feature #13: 'ETHNICITY'

'del_8p23.2' versus 'YEARS_TO_BIRTH'

P value = 0.0708 (Wilcoxon-test), Q value = 0.23

Table S144. Gene #40: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 18(8P23.2) MUTATED	188	65.9 (12.1)
DEL PEAK 18(8P23.2) WILD-TYPE	259	67.7 (13.7)

Figure S144. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p23.2' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S145. Gene #40: 'del_8p23.2' 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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 18(8P23.2) MUTATED	24	0	9	39	2	0	8	4	28	26	31	11	1
DEL PEAK 18(8P23.2) WILD-TYPE	50	1	20	93	8	1	12	4	31	15	14	6	1

Figure S145. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_8p23.2' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S146. Gene #40: 'del_8p23.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 18(8P23.2) MUTATED	85	52	51
DEL PEAK 18(8P23.2) WILD-TYPE	177	53	31

Figure S146. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_8p23.2' versus 'PATHOLOGY_M_STAGE'

P value = 2.5e-05 (Fisher's exact test), Q value = 0.00086

Table S147. Gene #40: 'del_8p23.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 18(8P23.2) MUTATED	124	43
DEL PEAK 18(8P23.2) WILD-TYPE	204	21

Figure S147. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p23.2' versus 'GENDER'

P value = 0.0128 (Fisher's exact test), Q value = 0.071

Table S148. Gene #40: 'del_8p23.2' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	213	236
DEL PEAK 18(8P23.2) MUTATED	76	112
DEL PEAK 18(8P23.2) WILD-TYPE	137	124

Figure S148. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #7: 'GENDER'

'del_8p23.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00328 (Fisher's exact test), Q value = 0.027

Table S149. Gene #40: 'del_8p23.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 18(8P23.2) MUTATED	170	15
DEL PEAK 18(8P23.2) WILD-TYPE	212	47

Figure S149. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_8p23.2' versus 'RESIDUAL_TUMOR'

P value = 0.023 (Fisher's exact test), Q value = 0.11

Table S150. Gene #40: 'del_8p23.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
DEL PEAK 18(8P23.2) MUTATED	127	2	16	6
DEL PEAK 18(8P23.2) WILD-TYPE	196	2	9	19

Figure S150. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_8p23.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 4.13e-06 (Wilcoxon-test), Q value = 0.00025

Table S151. Gene #40: 'del_8p23.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 18(8P23.2) MUTATED	182	3.0 (5.5)
DEL PEAK 18(8P23.2) WILD-TYPE	242	1.4 (3.3)

Figure S151. Get High-res Image Gene #40: 'del_8p23.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8p22' versus 'Time to Death'

P value = 0.0489 (logrank test), Q value = 0.18

Table S152. Gene #41: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 19(8P22) MUTATED	199	55	0.0 - 148.0 (24.0)
DEL PEAK 19(8P22) WILD-TYPE	237	46	0.0 - 139.2 (21.1)

Figure S152. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #1: 'Time to Death'

'del_8p22' versus 'YEARS_TO_BIRTH'

P value = 0.0262 (Wilcoxon-test), Q value = 0.12

Table S153. Gene #41: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 19(8P22) MUTATED	201	65.7 (12.2)
DEL PEAK 19(8P22) WILD-TYPE	246	67.9 (13.7)

Figure S153. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p22' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S154. Gene #41: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 19(8P22) MUTATED	25	0	10	41	2	0	9	5	31	27	31	14	1
DEL PEAK 19(8P22) WILD-TYPE	49	1	19	91	8	1	11	3	28	14	14	3	1

Figure S154. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_8p22' versus 'PATHOLOGY_T_STAGE'

P value = 0.0485 (Fisher's exact test), Q value = 0.18

Table S155. Gene #41: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	55
DEL PEAK 19(8P22) MUTATED	1	30	144	26
DEL PEAK 19(8P22) WILD-TYPE	10	47	161	29

Figure S155. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'del_8p22' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S156. Gene #41: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 19(8P22) MUTATED	90	56	55
DEL PEAK 19(8P22) WILD-TYPE	172	49	27

Figure S156. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_8p22' versus 'PATHOLOGY_M_STAGE'

P value = 4.51e-06 (Fisher's exact test), Q value = 0.00026

Table S157. Gene #41: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 19(8P22) MUTATED	133	46
DEL PEAK 19(8P22) WILD-TYPE	195	18

Figure S157. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_8p22' versus 'GENDER'

P value = 0.0573 (Fisher's exact test), Q value = 0.2

Table S158. Gene #41: 'del_8p22' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	213	236
DEL PEAK 19(8P22) MUTATED	85	116
DEL PEAK 19(8P22) WILD-TYPE	128	120

Figure S158. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #7: 'GENDER'

'del_8p22' versus 'HISTOLOGICAL_TYPE'

P value = 0.00142 (Fisher's exact test), Q value = 0.015

Table S159. Gene #41: 'del_8p22' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 19(8P22) MUTATED	182	16
DEL PEAK 19(8P22) WILD-TYPE	200	46

Figure S159. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_8p22' versus 'RESIDUAL_TUMOR'

P value = 0.0307 (Fisher's exact test), Q value = 0.13

Table S160. Gene #41: 'del_8p22' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
DEL PEAK 19(8P22) MUTATED	139	2	16	6
DEL PEAK 19(8P22) WILD-TYPE	184	2	9	19

Figure S160. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_8p22' versus 'NUMBER_OF_LYMPH_NODES'

P value = 3.44e-07 (Wilcoxon-test), Q value = 2.5e-05

Table S161. Gene #41: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 19(8P22) MUTATED	195	2.9 (5.4)
DEL PEAK 19(8P22) WILD-TYPE	229	1.3 (3.3)

Figure S161. Get High-res Image Gene #41: 'del_8p22' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_8q11.1' versus 'RACE'

P value = 0.0545 (Fisher's exact test), Q value = 0.19

Table S162. Gene #42: 'del_8q11.1' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	59	212
DEL PEAK 20(8Q11.1) MUTATED	1	0	6	13
DEL PEAK 20(8Q11.1) WILD-TYPE	0	11	53	199

Figure S162. Get High-res Image Gene #42: 'del_8q11.1' versus Clinical Feature #12: 'RACE'

'del_9p21.3' versus 'YEARS_TO_BIRTH'

P value = 0.0761 (Wilcoxon-test), Q value = 0.25

Table S163. Gene #43: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 21(9P21.3) MUTATED	61	64.3 (12.8)
DEL PEAK 21(9P21.3) WILD-TYPE	386	67.3 (13.1)

Figure S163. Get High-res Image Gene #43: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00824 (Fisher's exact test), Q value = 0.054

Table S164. Gene #43: 'del_9p21.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 21(9P21.3) MUTATED	58	2
DEL PEAK 21(9P21.3) WILD-TYPE	324	60

Figure S164. Get High-res Image Gene #43: 'del_9p21.3' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10p15.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00115 (Fisher's exact test), Q value = 0.013

Table S165. Gene #44: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 22(10P15.3) MUTATED	10	0	7	12	1	1	1	3	12	8	16	4	1
DEL PEAK 22(10P15.3) WILD-TYPE	64	1	22	120	9	0	19	5	47	33	29	13	1

Figure S165. Get High-res Image Gene #44: 'del_10p15.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10p15.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.011 (Fisher's exact test), Q value = 0.064

Table S166. Gene #44: 'del_10p15.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 22(10P15.3) MUTATED	34	23	21
DEL PEAK 22(10P15.3) WILD-TYPE	228	82	61

Figure S166. Get High-res Image Gene #44: 'del_10p15.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10p15.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.00106 (Fisher's exact test), Q value = 0.013

Table S167. Gene #44: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 22(10P15.3) MUTATED	48	21
DEL PEAK 22(10P15.3) WILD-TYPE	280	43

Figure S167. Get High-res Image Gene #44: 'del_10p15.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10p15.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00361 (Wilcoxon-test), Q value = 0.029

Table S168. Gene #44: 'del_10p15.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 22(10P15.3) MUTATED	75	3.1 (6.4)
DEL PEAK 22(10P15.3) WILD-TYPE	349	1.9 (3.9)

Figure S168. Get High-res Image Gene #44: 'del_10p15.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'YEARS_TO_BIRTH'

P value = 0.0433 (Wilcoxon-test), Q value = 0.17

Table S169. Gene #45: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 23(10Q21.1) MUTATED	97	64.4 (13.3)
DEL PEAK 23(10Q21.1) WILD-TYPE	350	67.6 (12.9)

Figure S169. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q21.1' versus 'PATHOLOGIC_STAGE'

P value = 0.00644 (Fisher's exact test), Q value = 0.045

Table S170. Gene #45: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 23(10Q21.1) MUTATED	12	0	7	19	1	1	1	2	14	14	17	5	1
DEL PEAK 23(10Q21.1) WILD-TYPE	62	1	22	113	9	0	19	6	45	27	28	12	1

Figure S170. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0211 (Fisher's exact test), Q value = 0.1

Table S171. Gene #45: 'del_10q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 23(10Q21.1) MUTATED	46	25	26
DEL PEAK 23(10Q21.1) WILD-TYPE	216	80	56

Figure S171. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00478 (Fisher's exact test), Q value = 0.036

Table S172. Gene #45: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 23(10Q21.1) MUTATED	63	23
DEL PEAK 23(10Q21.1) WILD-TYPE	265	41

Figure S172. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.031 (Fisher's exact test), Q value = 0.13

Table S173. Gene #45: 'del_10q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 23(10Q21.1) MUTATED	90	7
DEL PEAK 23(10Q21.1) WILD-TYPE	292	55

Figure S173. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.01 (Wilcoxon-test), Q value = 0.06

Table S174. Gene #45: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 23(10Q21.1) MUTATED	93	2.9 (6.1)
DEL PEAK 23(10Q21.1) WILD-TYPE	331	1.9 (3.8)

Figure S174. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q21.1' versus 'ETHNICITY'

P value = 0.0413 (Fisher's exact test), Q value = 0.16

Table S175. Gene #45: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

nPatients	HISPANIC OR LATINO	NOT HISPANIC OR LATINO
ALL	4	269
DEL PEAK 23(10Q21.1) MUTATED	3	61
DEL PEAK 23(10Q21.1) WILD-TYPE	1	208

Figure S175. Get High-res Image Gene #45: 'del_10q21.1' versus Clinical Feature #13: 'ETHNICITY'

'del_10q23.31' versus 'YEARS_TO_BIRTH'

P value = 0.00317 (Wilcoxon-test), Q value = 0.027

Table S176. Gene #46: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 24(10Q23.31) MUTATED	108	63.7 (13.1)
DEL PEAK 24(10Q23.31) WILD-TYPE	339	67.9 (12.9)

Figure S176. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'PATHOLOGIC_STAGE'

P value = 0.0122 (Fisher's exact test), Q value = 0.07

Table S177. Gene #46: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 24(10Q23.31) MUTATED	14	1	7	24	1	1	3	4	14	12	17	5	2
DEL PEAK 24(10Q23.31) WILD-TYPE	60	0	22	108	9	0	17	4	45	29	28	12	0

Figure S177. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q23.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.04 (Fisher's exact test), Q value = 0.16

Table S178. Gene #46: 'del_10q23.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 24(10Q23.31) MUTATED	52	30	26
DEL PEAK 24(10Q23.31) WILD-TYPE	210	75	56

Figure S178. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q23.31' versus 'PATHOLOGY_M_STAGE'

P value = 0.0167 (Fisher's exact test), Q value = 0.086

Table S179. Gene #46: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 24(10Q23.31) MUTATED	73	24
DEL PEAK 24(10Q23.31) WILD-TYPE	255	40

Figure S179. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q23.31' versus 'HISTOLOGICAL_TYPE'

P value = 0.0765 (Fisher's exact test), Q value = 0.25

Table S180. Gene #46: 'del_10q23.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 24(10Q23.31) MUTATED	97	9
DEL PEAK 24(10Q23.31) WILD-TYPE	285	53

Figure S180. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10q23.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00894 (Wilcoxon-test), Q value = 0.056

Table S181. Gene #46: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 24(10Q23.31) MUTATED	104	2.4 (3.8)
DEL PEAK 24(10Q23.31) WILD-TYPE	320	2.0 (4.6)

Figure S181. Get High-res Image Gene #46: 'del_10q23.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_10q25.2' versus 'YEARS_TO_BIRTH'

P value = 0.0582 (Wilcoxon-test), Q value = 0.2

Table S182. Gene #47: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 25(10Q25.2) MUTATED	108	64.9 (13.0)
DEL PEAK 25(10Q25.2) WILD-TYPE	339	67.6 (13.0)

Figure S182. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q25.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0662 (Fisher's exact test), Q value = 0.22

Table S183. Gene #47: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 25(10Q25.2) MUTATED	11	0	8	26	1	1	5	3	14	13	18	5	1
DEL PEAK 25(10Q25.2) WILD-TYPE	63	1	21	106	9	0	15	5	45	28	27	12	1

Figure S183. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_10q25.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0125 (Fisher's exact test), Q value = 0.071

Table S184. Gene #47: 'del_10q25.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 25(10Q25.2) MUTATED	50	31	27
DEL PEAK 25(10Q25.2) WILD-TYPE	212	74	55

Figure S184. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_10q25.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.018 (Fisher's exact test), Q value = 0.09

Table S185. Gene #47: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 25(10Q25.2) MUTATED	75	24
DEL PEAK 25(10Q25.2) WILD-TYPE	253	40

Figure S185. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_10q25.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.077 (Fisher's exact test), Q value = 0.25

Table S186. Gene #47: 'del_10q25.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 25(10Q25.2) MUTATED	98	9
DEL PEAK 25(10Q25.2) WILD-TYPE	284	53

Figure S186. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_10q25.2' versus 'RESIDUAL_TUMOR'

P value = 0.0563 (Fisher's exact test), Q value = 0.19

Table S187. Gene #47: 'del_10q25.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
DEL PEAK 25(10Q25.2) MUTATED	74	2	11	5
DEL PEAK 25(10Q25.2) WILD-TYPE	249	2	14	20

Figure S187. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_10q25.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00666 (Wilcoxon-test), Q value = 0.046

Table S188. Gene #47: 'del_10q25.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 25(10Q25.2) MUTATED	104	2.5 (3.9)
DEL PEAK 25(10Q25.2) WILD-TYPE	320	1.9 (4.6)

Figure S188. Get High-res Image Gene #47: 'del_10q25.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_12p13.2' versus 'Time to Death'

P value = 0.047 (logrank test), Q value = 0.18

Table S189. Gene #48: 'del_12p13.2' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 26(12P13.2) MUTATED	60	19	2.0 - 78.1 (19.6)
DEL PEAK 26(12P13.2) WILD-TYPE	376	82	0.0 - 148.0 (22.1)

Figure S189. Get High-res Image Gene #48: 'del_12p13.2' versus Clinical Feature #1: 'Time to Death'

'del_12p13.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0712 (Fisher's exact test), Q value = 0.23

Table S190. Gene #48: 'del_12p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 26(12P13.2) MUTATED	27	19	14
DEL PEAK 26(12P13.2) WILD-TYPE	235	86	68

Figure S190. Get High-res Image Gene #48: 'del_12p13.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_12p13.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.0601 (Fisher's exact test), Q value = 0.2

Table S191. Gene #48: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 26(12P13.2) MUTATED	36	13
DEL PEAK 26(12P13.2) WILD-TYPE	292	51

Figure S191. Get High-res Image Gene #48: 'del_12p13.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_12p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00825 (Fisher's exact test), Q value = 0.054

Table S192. Gene #48: 'del_12p13.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 26(12P13.2) MUTATED	57	2
DEL PEAK 26(12P13.2) WILD-TYPE	325	60

Figure S192. Get High-res Image Gene #48: 'del_12p13.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_12p13.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.075 (Wilcoxon-test), Q value = 0.25

Table S193. Gene #48: 'del_12p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 26(12P13.2) MUTATED	57	2.2 (3.4)
DEL PEAK 26(12P13.2) WILD-TYPE	367	2.1 (4.6)

Figure S193. Get High-res Image Gene #48: 'del_12p13.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_13q14.13' versus 'PATHOLOGY_N_STAGE'

P value = 0.0366 (Fisher's exact test), Q value = 0.15

Table S194. Gene #49: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 27(13Q14.13) MUTATED	11	1	7
DEL PEAK 27(13Q14.13) WILD-TYPE	251	104	75

Figure S194. Get High-res Image Gene #49: 'del_13q14.13' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_13q14.13' versus 'RACE'

P value = 0.0314 (Fisher's exact test), Q value = 0.13

Table S195. Gene #49: 'del_13q14.13' versus Clinical Feature #12: 'RACE'

nPatients	AMERICAN INDIAN OR ALASKA NATIVE	ASIAN	BLACK OR AFRICAN AMERICAN	WHITE
ALL	1	11	59	212
DEL PEAK 27(13Q14.13) MUTATED	1	1	3	8
DEL PEAK 27(13Q14.13) WILD-TYPE	0	10	56	204

Figure S195. Get High-res Image Gene #49: 'del_13q14.13' versus Clinical Feature #12: 'RACE'

'del_14q31.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.031 (Fisher's exact test), Q value = 0.13

Table S196. Gene #50: 'del_14q31.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 28(14Q31.1) MUTATED	74	42	33
DEL PEAK 28(14Q31.1) WILD-TYPE	188	63	49

Figure S196. Get High-res Image Gene #50: 'del_14q31.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_14q31.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.00929 (Fisher's exact test), Q value = 0.058

Table S197. Gene #50: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 28(14Q31.1) MUTATED	102	31
DEL PEAK 28(14Q31.1) WILD-TYPE	226	33

Figure S197. Get High-res Image Gene #50: 'del_14q31.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_14q31.1' versus 'HISTOLOGICAL_TYPE'

P value = 3.01e-07 (Fisher's exact test), Q value = 2.5e-05

Table S198. Gene #50: 'del_14q31.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 28(14Q31.1) MUTATED	141	4
DEL PEAK 28(14Q31.1) WILD-TYPE	241	58

Figure S198. Get High-res Image Gene #50: 'del_14q31.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_14q31.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0126 (Wilcoxon-test), Q value = 0.071

Table S199. Gene #50: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 28(14Q31.1) MUTATED	141	2.6 (4.8)
DEL PEAK 28(14Q31.1) WILD-TYPE	283	1.8 (4.2)

Figure S199. Get High-res Image Gene #50: 'del_14q31.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0295 (Fisher's exact test), Q value = 0.13

Table S200. Gene #51: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 29(15Q11.2) MUTATED	28	0	8	42	2	0	6	5	23	20	23	11	2
DEL PEAK 29(15Q11.2) WILD-TYPE	46	1	21	90	8	1	14	3	36	21	22	6	0

Figure S200. Get High-res Image Gene #51: 'del_15q11.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.015 (Fisher's exact test), Q value = 0.08

Table S201. Gene #51: 'del_15q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 29(15Q11.2) MUTATED	88	49	39
DEL PEAK 29(15Q11.2) WILD-TYPE	174	56	43

Figure S201. Get High-res Image Gene #51: 'del_15q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q11.2' versus 'PATHOLOGY_M_STAGE'

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

Table S202. Gene #51: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 29(15Q11.2) MUTATED	118	36
DEL PEAK 29(15Q11.2) WILD-TYPE	210	28

Figure S202. Get High-res Image Gene #51: 'del_15q11.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q11.2' versus 'HISTOLOGICAL_TYPE'

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

Table S203. Gene #51: 'del_15q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 29(15Q11.2) MUTATED	157	16
DEL PEAK 29(15Q11.2) WILD-TYPE	225	46

Figure S203. Get High-res Image Gene #51: 'del_15q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00748 (Wilcoxon-test), Q value = 0.05

Table S204. Gene #51: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 29(15Q11.2) MUTATED	167	2.4 (3.8)
DEL PEAK 29(15Q11.2) WILD-TYPE	257	1.9 (4.8)

Figure S204. Get High-res Image Gene #51: 'del_15q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q15.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0252 (Fisher's exact test), Q value = 0.11

Table S205. Gene #52: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 30(15Q15.2) MUTATED	29	0	8	39	2	0	6	4	22	19	25	10	2
DEL PEAK 30(15Q15.2) WILD-TYPE	45	1	21	93	8	1	14	4	37	22	20	7	0

Figure S205. Get High-res Image Gene #52: 'del_15q15.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q15.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.013 (Fisher's exact test), Q value = 0.072

Table S206. Gene #52: 'del_15q15.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 30(15Q15.2) MUTATED	85	50	36
DEL PEAK 30(15Q15.2) WILD-TYPE	177	55	46

Figure S206. Get High-res Image Gene #52: 'del_15q15.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q15.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0066

Table S207. Gene #52: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 30(15Q15.2) MUTATED	110	37
DEL PEAK 30(15Q15.2) WILD-TYPE	218	27

Figure S207. Get High-res Image Gene #52: 'del_15q15.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q15.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0167 (Fisher's exact test), Q value = 0.086

Table S208. Gene #52: 'del_15q15.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 30(15Q15.2) MUTATED	153	15
DEL PEAK 30(15Q15.2) WILD-TYPE	229	47

Figure S208. Get High-res Image Gene #52: 'del_15q15.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q15.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0137 (Wilcoxon-test), Q value = 0.075

Table S209. Gene #52: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 30(15Q15.2) MUTATED	163	2.3 (3.8)
DEL PEAK 30(15Q15.2) WILD-TYPE	261	2.0 (4.8)

Figure S209. Get High-res Image Gene #52: 'del_15q15.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q21.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0551 (Fisher's exact test), Q value = 0.19

Table S210. Gene #53: 'del_15q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 31(15Q21.1) MUTATED	86	47	35
DEL PEAK 31(15Q21.1) WILD-TYPE	176	58	47

Figure S210. Get High-res Image Gene #53: 'del_15q21.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q21.1' versus 'PATHOLOGY_M_STAGE'

P value = 0.000651 (Fisher's exact test), Q value = 0.009

Table S211. Gene #53: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 31(15Q21.1) MUTATED	109	36
DEL PEAK 31(15Q21.1) WILD-TYPE	219	28

Figure S211. Get High-res Image Gene #53: 'del_15q21.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q21.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0233 (Fisher's exact test), Q value = 0.11

Table S212. Gene #53: 'del_15q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 31(15Q21.1) MUTATED	151	15
DEL PEAK 31(15Q21.1) WILD-TYPE	231	47

Figure S212. Get High-res Image Gene #53: 'del_15q21.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q21.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0482 (Wilcoxon-test), Q value = 0.18

Table S213. Gene #53: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 31(15Q21.1) MUTATED	160	2.3 (3.8)
DEL PEAK 31(15Q21.1) WILD-TYPE	264	2.0 (4.8)

Figure S213. Get High-res Image Gene #53: 'del_15q21.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_15q22.33' versus 'PATHOLOGIC_STAGE'

P value = 0.0203 (Fisher's exact test), Q value = 0.099

Table S214. Gene #54: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 32(15Q22.33) MUTATED	23	0	7	39	2	0	5	4	19	20	23	11	1
DEL PEAK 32(15Q22.33) WILD-TYPE	51	1	22	93	8	1	15	4	40	21	22	6	1

Figure S214. Get High-res Image Gene #54: 'del_15q22.33' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_15q22.33' versus 'PATHOLOGY_N_STAGE'

P value = 0.0156 (Fisher's exact test), Q value = 0.083

Table S215. Gene #54: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 32(15Q22.33) MUTATED	79	44	37
DEL PEAK 32(15Q22.33) WILD-TYPE	183	61	45

Figure S215. Get High-res Image Gene #54: 'del_15q22.33' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_15q22.33' versus 'PATHOLOGY_M_STAGE'

P value = 0.000507 (Fisher's exact test), Q value = 0.008

Table S216. Gene #54: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 32(15Q22.33) MUTATED	102	35
DEL PEAK 32(15Q22.33) WILD-TYPE	226	29

Figure S216. Get High-res Image Gene #54: 'del_15q22.33' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_15q22.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0226 (Fisher's exact test), Q value = 0.11

Table S217. Gene #54: 'del_15q22.33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 32(15Q22.33) MUTATED	143	14
DEL PEAK 32(15Q22.33) WILD-TYPE	239	48

Figure S217. Get High-res Image Gene #54: 'del_15q22.33' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_15q22.33' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00948 (Wilcoxon-test), Q value = 0.059

Table S218. Gene #54: 'del_15q22.33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 32(15Q22.33) MUTATED	152	2.3 (3.8)
DEL PEAK 32(15Q22.33) WILD-TYPE	272	1.9 (4.8)

Figure S218. Get High-res Image Gene #54: 'del_15q22.33' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_16p13.3' versus 'Time to Death'

P value = 0.00451 (logrank test), Q value = 0.034

Table S219. Gene #55: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 33(16P13.3) MUTATED	54	19	0.2 - 61.8 (19.2)
DEL PEAK 33(16P13.3) WILD-TYPE	382	82	0.0 - 148.0 (22.2)

Figure S219. Get High-res Image Gene #55: 'del_16p13.3' versus Clinical Feature #1: 'Time to Death'

'del_16p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.0332 (Fisher's exact test), Q value = 0.14

Table S220. Gene #55: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 33(16P13.3) MUTATED	3	0	3	17	3	0	0	0	9	9	6	5	0
DEL PEAK 33(16P13.3) WILD-TYPE	71	1	26	115	7	1	20	8	50	32	39	12	2

Figure S220. Get High-res Image Gene #55: 'del_16p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_16p13.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.0293 (Fisher's exact test), Q value = 0.13

Table S221. Gene #55: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients	T1	T2	T3	T4
ALL	11	77	305	55
DEL PEAK 33(16P13.3) MUTATED	0	3	45	8
DEL PEAK 33(16P13.3) WILD-TYPE	11	74	260	47

Figure S221. Get High-res Image Gene #55: 'del_16p13.3' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'del_16q23.1' versus 'Time to Death'

P value = 0.0176 (logrank test), Q value = 0.089

Table S222. Gene #56: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 34(16Q23.1) MUTATED	59	17	0.9 - 53.0 (18.1)
DEL PEAK 34(16Q23.1) WILD-TYPE	377	84	0.0 - 148.0 (23.5)

Figure S222. Get High-res Image Gene #56: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

'del_17p12' versus 'YEARS_TO_BIRTH'

P value = 0.0249 (Wilcoxon-test), Q value = 0.11

Table S223. Gene #57: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 35(17P12) MUTATED	252	65.8 (12.6)
DEL PEAK 35(17P12) WILD-TYPE	195	68.3 (13.6)

Figure S223. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17p12' versus 'PATHOLOGIC_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S224. Gene #57: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 35(17P12) MUTATED	36	0	14	56	2	1	12	8	35	31	34	13	2
DEL PEAK 35(17P12) WILD-TYPE	38	1	15	76	8	0	8	0	24	10	11	4	0

Figure S224. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_17p12' versus 'PATHOLOGY_N_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00039

Table S225. Gene #57: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 35(17P12) MUTATED	122	71	59
DEL PEAK 35(17P12) WILD-TYPE	140	34	23

Figure S225. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_17p12' versus 'PATHOLOGY_M_STAGE'

P value = 0.000496 (Fisher's exact test), Q value = 0.008

Table S226. Gene #57: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 35(17P12) MUTATED	173	49
DEL PEAK 35(17P12) WILD-TYPE	155	15

Figure S226. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_17p12' versus 'HISTOLOGICAL_TYPE'

P value = 3.56e-07 (Fisher's exact test), Q value = 2.5e-05

Table S227. Gene #57: 'del_17p12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 35(17P12) MUTATED	232	16
DEL PEAK 35(17P12) WILD-TYPE	150	46

Figure S227. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_17p12' versus 'NUMBER_OF_LYMPH_NODES'

P value = 1.94e-06 (Wilcoxon-test), Q value = 0.00013

Table S228. Gene #57: 'del_17p12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 35(17P12) MUTATED	238	2.8 (5.4)
DEL PEAK 35(17P12) WILD-TYPE	186	1.2 (2.6)

Figure S228. Get High-res Image Gene #57: 'del_17p12' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_17q24.3' versus 'Time to Death'

P value = 0.0711 (logrank test), Q value = 0.23

Table S229. Gene #58: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

	nPatients	nDeath	Duration Range (Median), Month
ALL	436	101	0.0 - 148.0 (22.0)
DEL PEAK 36(17Q24.3) MUTATED	68	21	0.2 - 140.4 (23.3)
DEL PEAK 36(17Q24.3) WILD-TYPE	368	80	0.0 - 148.0 (22.0)

Figure S229. Get High-res Image Gene #58: 'del_17q24.3' versus Clinical Feature #1: 'Time to Death'

'del_17q24.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00308 (Fisher's exact test), Q value = 0.027

Table S230. Gene #58: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 36(17Q24.3) MUTATED	10	0	4	10	0	0	3	2	7	12	10	7	1
DEL PEAK 36(17Q24.3) WILD-TYPE	64	1	25	122	10	1	17	6	52	29	35	10	1

Figure S230. Get High-res Image Gene #58: 'del_17q24.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_17q24.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.0019 (Fisher's exact test), Q value = 0.019

Table S231. Gene #58: 'del_17q24.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 36(17Q24.3) MUTATED	27	23	19
DEL PEAK 36(17Q24.3) WILD-TYPE	235	82	63

Figure S231. Get High-res Image Gene #58: 'del_17q24.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_17q24.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.00317 (Fisher's exact test), Q value = 0.027

Table S232. Gene #58: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 36(17Q24.3) MUTATED	40	18
DEL PEAK 36(17Q24.3) WILD-TYPE	288	46

Figure S232. Get High-res Image Gene #58: 'del_17q24.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_17q24.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 7.89e-05 (Wilcoxon-test), Q value = 0.0021

Table S233. Gene #58: 'del_17q24.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 36(17Q24.3) MUTATED	65	3.0 (3.9)
DEL PEAK 36(17Q24.3) WILD-TYPE	359	1.9 (4.5)

Figure S233. Get High-res Image Gene #58: 'del_17q24.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18p11.31' versus 'YEARS_TO_BIRTH'

P value = 0.0517 (Wilcoxon-test), Q value = 0.18

Table S234. Gene #59: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 37(18P11.31) MUTATED	247	66.1 (12.1)
DEL PEAK 37(18P11.31) WILD-TYPE	200	67.9 (14.1)

Figure S234. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18p11.31' versus 'PATHOLOGIC_STAGE'

P value = 0.00019 (Fisher's exact test), Q value = 0.0042

Table S235. Gene #59: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 37(18P11.31) MUTATED	37	0	11	66	3	1	7	6	36	22	34	16	1
DEL PEAK 37(18P11.31) WILD-TYPE	37	1	18	66	7	0	13	2	23	19	11	1	1

Figure S235. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18p11.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.0105 (Fisher's exact test), Q value = 0.062

Table S236. Gene #59: 'del_18p11.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 37(18P11.31) MUTATED	130	70	47
DEL PEAK 37(18P11.31) WILD-TYPE	132	35	35

Figure S236. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18p11.31' versus 'PATHOLOGY_M_STAGE'

P value = 1.47e-05 (Fisher's exact test), Q value = 0.00055

Table S237. Gene #59: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 37(18P11.31) MUTATED	165	51
DEL PEAK 37(18P11.31) WILD-TYPE	163	13

Figure S237. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18p11.31' versus 'HISTOLOGICAL_TYPE'

P value = 2.97e-11 (Fisher's exact test), Q value = 1.3e-08

Table S238. Gene #59: 'del_18p11.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 37(18P11.31) MUTATED	233	10
DEL PEAK 37(18P11.31) WILD-TYPE	149	52

Figure S238. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18p11.31' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0304 (Wilcoxon-test), Q value = 0.13

Table S239. Gene #59: 'del_18p11.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 37(18P11.31) MUTATED	234	2.2 (4.0)
DEL PEAK 37(18P11.31) WILD-TYPE	190	2.0 (4.9)

Figure S239. Get High-res Image Gene #59: 'del_18p11.31' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18q12.2' versus 'YEARS_TO_BIRTH'

P value = 0.0258 (Wilcoxon-test), Q value = 0.12

Table S240. Gene #60: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 38(18Q12.2) MUTATED	272	66.0 (12.4)
DEL PEAK 38(18Q12.2) WILD-TYPE	175	68.3 (14.0)

Figure S240. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q12.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00122 (Fisher's exact test), Q value = 0.013

Table S241. Gene #60: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 38(18Q12.2) MUTATED	38	0	16	70	3	1	11	8	37	28	36	14	1
DEL PEAK 38(18Q12.2) WILD-TYPE	36	1	13	62	7	0	9	0	22	13	9	3	1

Figure S241. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18q12.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0011 (Fisher's exact test), Q value = 0.013

Table S242. Gene #60: 'del_18q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 38(18Q12.2) MUTATED	140	74	58
DEL PEAK 38(18Q12.2) WILD-TYPE	122	31	24

Figure S242. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18q12.2' versus 'PATHOLOGY_M_STAGE'

P value = 0.00114 (Fisher's exact test), Q value = 0.013

Table S243. Gene #60: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 38(18Q12.2) MUTATED	191	51
DEL PEAK 38(18Q12.2) WILD-TYPE	137	13

Figure S243. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q12.2' versus 'HISTOLOGICAL_TYPE'

P value = 9.05e-11 (Fisher's exact test), Q value = 2.3e-08

Table S244. Gene #60: 'del_18q12.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 38(18Q12.2) MUTATED	255	14
DEL PEAK 38(18Q12.2) WILD-TYPE	127	48

Figure S244. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18q12.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00262 (Wilcoxon-test), Q value = 0.024

Table S245. Gene #60: 'del_18q12.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 38(18Q12.2) MUTATED	258	2.3 (4.6)
DEL PEAK 38(18Q12.2) WILD-TYPE	166	1.7 (4.2)

Figure S245. Get High-res Image Gene #60: 'del_18q12.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18q21.2' versus 'YEARS_TO_BIRTH'

P value = 0.0488 (Wilcoxon-test), Q value = 0.18

Table S246. Gene #61: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

	nPatients	Mean (Std.Dev)
ALL	447	66.9 (13.1)
DEL PEAK 39(18Q21.2) MUTATED	286	66.2 (12.3)
DEL PEAK 39(18Q21.2) WILD-TYPE	161	68.3 (14.2)

Figure S246. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q21.2' versus 'PATHOLOGIC_STAGE'

P value = 8e-05 (Fisher's exact test), Q value = 0.0021

Table S247. Gene #61: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 39(18Q21.2) MUTATED	40	0	17	72	3	1	11	8	40	31	38	15	2
DEL PEAK 39(18Q21.2) WILD-TYPE	34	1	12	60	7	0	9	0	19	10	7	2	0

Figure S247. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18q21.2' versus 'PATHOLOGY_N_STAGE'

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

Table S248. Gene #61: 'del_18q21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 39(18Q21.2) MUTATED	145	78	63
DEL PEAK 39(18Q21.2) WILD-TYPE	117	27	19

Figure S248. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18q21.2' versus 'PATHOLOGY_M_STAGE'

P value = 8.66e-05 (Fisher's exact test), Q value = 0.0022

Table S249. Gene #61: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 39(18Q21.2) MUTATED	199	55
DEL PEAK 39(18Q21.2) WILD-TYPE	129	9

Figure S249. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q21.2' versus 'GENDER'

P value = 0.0393 (Fisher's exact test), Q value = 0.16

Table S250. Gene #61: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	213	236
DEL PEAK 39(18Q21.2) MUTATED	125	161
DEL PEAK 39(18Q21.2) WILD-TYPE	88	75

Figure S250. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #7: 'GENDER'

'del_18q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 1.07e-10 (Fisher's exact test), Q value = 2.3e-08

Table S251. Gene #61: 'del_18q21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 39(18Q21.2) MUTATED	267	16
DEL PEAK 39(18Q21.2) WILD-TYPE	115	46

Figure S251. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18q21.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.37e-05 (Wilcoxon-test), Q value = 0.0022

Table S252. Gene #61: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 39(18Q21.2) MUTATED	272	2.4 (4.6)
DEL PEAK 39(18Q21.2) WILD-TYPE	152	1.6 (4.1)

Figure S252. Get High-res Image Gene #61: 'del_18q21.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_18q22.1' versus 'PATHOLOGIC_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.0013

Table S253. Gene #62: 'del_18q22.1' 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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 40(18Q22.1) MUTATED	40	0	18	72	3	1	10	8	39	31	38	15	2
DEL PEAK 40(18Q22.1) WILD-TYPE	34	1	11	60	7	0	10	0	20	10	7	2	0

Figure S253. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_18q22.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00019 (Fisher's exact test), Q value = 0.0042

Table S254. Gene #62: 'del_18q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 40(18Q22.1) MUTATED	146	76	63
DEL PEAK 40(18Q22.1) WILD-TYPE	116	29	19

Figure S254. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_18q22.1' versus 'PATHOLOGY_M_STAGE'

P value = 5.17e-05 (Fisher's exact test), Q value = 0.0015

Table S255. Gene #62: 'del_18q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 40(18Q22.1) MUTATED	198	55
DEL PEAK 40(18Q22.1) WILD-TYPE	130	9

Figure S255. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_18q22.1' versus 'GENDER'

P value = 0.031 (Fisher's exact test), Q value = 0.13

Table S256. Gene #62: 'del_18q22.1' versus Clinical Feature #7: 'GENDER'

nPatients	FEMALE	MALE
ALL	213	236
DEL PEAK 40(18Q22.1) MUTATED	124	161
DEL PEAK 40(18Q22.1) WILD-TYPE	89	75

Figure S256. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #7: 'GENDER'

'del_18q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1.29e-11 (Fisher's exact test), Q value = 1.1e-08

Table S257. Gene #62: 'del_18q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 40(18Q22.1) MUTATED	267	15
DEL PEAK 40(18Q22.1) WILD-TYPE	115	47

Figure S257. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_18q22.1' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000261 (Wilcoxon-test), Q value = 0.0053

Table S258. Gene #62: 'del_18q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 40(18Q22.1) MUTATED	271	2.4 (4.6)
DEL PEAK 40(18Q22.1) WILD-TYPE	153	1.6 (4.1)

Figure S258. Get High-res Image Gene #62: 'del_18q22.1' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_19p13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00228 (Fisher's exact test), Q value = 0.022

Table S259. Gene #63: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 41(19P13.3) MUTATED	8	0	1	11	1	0	5	2	5	13	10	4	1
DEL PEAK 41(19P13.3) WILD-TYPE	66	1	28	121	9	1	15	6	54	28	35	13	1

Figure S259. Get High-res Image Gene #63: 'del_19p13.3' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_19p13.3' versus 'PATHOLOGY_N_STAGE'

P value = 6e-05 (Fisher's exact test), Q value = 0.0017

Table S260. Gene #63: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 41(19P13.3) MUTATED	23	16	24
DEL PEAK 41(19P13.3) WILD-TYPE	239	89	58

Figure S260. Get High-res Image Gene #63: 'del_19p13.3' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_19p13.3' versus 'PATHOLOGY_M_STAGE'

P value = 0.0285 (Fisher's exact test), Q value = 0.13

Table S261. Gene #63: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 41(19P13.3) MUTATED	40	15
DEL PEAK 41(19P13.3) WILD-TYPE	288	49

Figure S261. Get High-res Image Gene #63: 'del_19p13.3' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_19p13.3' versus 'RESIDUAL_TUMOR'

P value = 0.0351 (Fisher's exact test), Q value = 0.14

Table S262. Gene #63: 'del_19p13.3' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

nPatients	R0	R1	R2	RX
ALL	323	4	25	25
DEL PEAK 41(19P13.3) MUTATED	41	2	7	3
DEL PEAK 41(19P13.3) WILD-TYPE	282	2	18	22

Figure S262. Get High-res Image Gene #63: 'del_19p13.3' versus Clinical Feature #10: 'RESIDUAL_TUMOR'

'del_19p13.3' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.08e-06 (Wilcoxon-test), Q value = 0.00027

Table S263. Gene #63: 'del_19p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 41(19P13.3) MUTATED	60	4.2 (5.9)
DEL PEAK 41(19P13.3) WILD-TYPE	364	1.7 (4.1)

Figure S263. Get High-res Image Gene #63: 'del_19p13.3' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

'del_20p12.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0217 (Fisher's exact test), Q value = 0.1

Table S264. Gene #64: 'del_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 42(20P12.1) MUTATED	79	5
DEL PEAK 42(20P12.1) WILD-TYPE	303	57

Figure S264. Get High-res Image Gene #64: 'del_20p12.1' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'PATHOLOGY_N_STAGE'

P value = 0.0436 (Fisher's exact test), Q value = 0.17

Table S265. Gene #65: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 43(21Q11.2) MUTATED	73	32	35
DEL PEAK 43(21Q11.2) WILD-TYPE	189	73	47

Figure S265. Get High-res Image Gene #65: 'del_21q11.2' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_21q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00061 (Fisher's exact test), Q value = 0.0087

Table S266. Gene #65: 'del_21q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 43(21Q11.2) MUTATED	129	8
DEL PEAK 43(21Q11.2) WILD-TYPE	253	54

Figure S266. Get High-res Image Gene #65: 'del_21q11.2' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_21q11.2' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0555 (Wilcoxon-test), Q value = 0.19

Table S267. Gene #65: 'del_21q11.2' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 43(21Q11.2) MUTATED	133	2.9 (6.2)
DEL PEAK 43(21Q11.2) WILD-TYPE	291	1.7 (3.3)

Figure S267. Get High-res Image Gene #65: '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 = 0.013

Table S268. Gene #66: '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	29	132	10	1	20	8	59	41	45	17	2
DEL PEAK 44(22Q13.32) MUTATED	19	0	8	40	1	0	6	6	18	22	25	8	0
DEL PEAK 44(22Q13.32) WILD-TYPE	55	1	21	92	9	1	14	2	41	19	20	9	2

Figure S268. Get High-res Image Gene #66: 'del_22q13.32' versus Clinical Feature #3: 'PATHOLOGIC_STAGE'

'del_22q13.32' versus 'PATHOLOGY_N_STAGE'

P value = 5e-04 (Fisher's exact test), Q value = 0.008

Table S269. Gene #66: 'del_22q13.32' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients	N0	N1	N2
ALL	262	105	82
DEL PEAK 44(22Q13.32) MUTATED	73	45	40
DEL PEAK 44(22Q13.32) WILD-TYPE	189	60	42

Figure S269. Get High-res Image Gene #66: 'del_22q13.32' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'del_22q13.32' versus 'PATHOLOGY_M_STAGE'

P value = 0.00399 (Fisher's exact test), Q value = 0.031

Table S270. Gene #66: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients	0	1
ALL	328	64
DEL PEAK 44(22Q13.32) MUTATED	105	33
DEL PEAK 44(22Q13.32) WILD-TYPE	223	31

Figure S270. Get High-res Image Gene #66: 'del_22q13.32' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 0.00152 (Fisher's exact test), Q value = 0.016

Table S271. Gene #66: 'del_22q13.32' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients	COLON ADENOCARCINOMA	COLON MUCINOUS ADENOCARCINOMA
ALL	382	62
DEL PEAK 44(22Q13.32) MUTATED	146	11
DEL PEAK 44(22Q13.32) WILD-TYPE	236	51

Figure S271. Get High-res Image Gene #66: 'del_22q13.32' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000214 (Wilcoxon-test), Q value = 0.0046

Table S272. Gene #66: 'del_22q13.32' versus Clinical Feature #11: 'NUMBER_OF_LYMPH_NODES'

	nPatients	Mean (Std.Dev)
ALL	424	2.1 (4.4)
DEL PEAK 44(22Q13.32) MUTATED	149	2.8 (4.9)
DEL PEAK 44(22Q13.32) WILD-TYPE	275	1.7 (4.2)

Figure S272. Get High-res Image Gene #66: '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/22508739/transformed.cor.cli.txt
Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/COAD-TP/22506513/COAD-TP.merged_data.txt
Number of patients = 449
Number of significantly focal cnvs = 66
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.

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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