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Table 1 Information on 30 mutation features

From: Discovering the molecular differences between right- and left-sided colon cancer using machine learning methods

Mutationa avsnp150b Gene.refGenec weightsd Sample Number in LCC(%)e Sample Number in RCC_(%)f P valueg
chr7_140753336_140753336_A_T rs113488022 BRAF 0.12 2 (1.8) 35 (20.5) 4.72E-15
chr12_25245347_25245347_C_T rs112445441 KRAS 0.09 5 (4.5) 20 (11.7) 4.07E-08
chr5_112839942_112839942_C_T rs121913332 APC 0.09 1 (0.9) 18 (10.5) 2.93E-07
chr12_25245350_25245350_C_G rs121913529 KRAS 0.09 1 (0.9) 6 (3.5) 0.02
chr12_25245350_25245350_C_T rs121913529 KRAS 0.07 8 (7.1) 26 (15.2) 8.74E-11
chr17_7674220_7674220_C_T rs11540652 TP53 0.06 10 (8.9) 2 (1.2) 0.56
chr7_135929761_135929762_AT_A . LUZP6;MTPN 0.06 4 (3.6) 2 (1.2) 0.56
chr3_179234297_179234297_A_G rs121913279 PIK3CA 0.05 5 (4.5) 7 (4.1) 0.01
chr12_25245350_25245350_C_A rs121913529 KRAS 0.04 11 (9.8) 13 (7.6) 3.46E-05
chr3_179218294_179218294_G_A rs121913273 PIK3CA 0.04 4 (3.6) 5 (2.9) 0.04
chr12_25225628_25225628_C_T rs121913527 KRAS 0.03 2 (1.8) 6 (3.5) 0.02
chr5_112780895_112780895_C_T rs587781392 APC 0.03 4 (3.6) 4 (2.3) 0.08
chr5_78039082_78039083_GT_G . AP3B1 0.03 2 (1.8) 10 (5.8) 5.37E-4
chr15_23567535_23567536_CT_C . MKRN3 0.02 1 (0.9) 15 (8.8) 5.29E-06
chr17_7673802_7673802_C_T rs28934576 TP53 0.02 5 (4.5) 6 (3.5) 0.02
chr3_46375665_46375666_TG_T rs939905165 LOC102724297 0.02 0 (0) 15 (8.8) 5.29E-06
chr1_244056271_244056272_GA_G rs972665297 ZBTB18 0.02 2 (1.8) 17 (9.9) 7.77E-07
chr7_1747914_1747915_TA_T . ELFN1 0.02 2 (1.8) 8 (4.7) 3.08E-3
chr12_109581434_109581435_GC_G . MVK 0.02 0 (0) 11 (6.4) 2.16E-4
chr4_105242265_105242266_CT_C . TET2-AS1 0.02 1 (0.9) 8 (4.7) 3.08E-3
chr8_13568071_13568072_CT_C rs1014242184 C8orf48 0.01 1 (0.9) 14 (8.2) 1.36E-05
chr17_58357799_58357800_AC_A rs781215815 RNF43 0.01 0 (0) 17 (9.9) 7.77E-07
chr2_68464196_68464197_AT_A . FBXO48 0.01 0 (0) 9 (5.3) 1.29E-3
chr4_154609909_154609910_GT_G . FGG 0.01 0 (0) 10 (5.8) 5.32E-4
chr17_7675088_7675088_C_T rs28934578 TP53 0.01 10 (8.9) 13 (7.6) 3.46E-05
chr2_147926116_147926117_TA_T rs764719749 ACVR2A 0.01 1 (0.9) 11 (6.4) 2.16E-4
chr5_112838220_112838220_C_T rs121913333 APC 0.01 3 (2.7) 7 (4.1) 7.22E-3
chr13_108232109_108232110_CA_C rs977361714 ABHD13 0.003 1 (0.9) 9 (5.3) 1.29E-3
chr4_44698597_44698598_GA_G . GUF1 0.003 1 (0.9) 11 (6.4) 2.16E-4
chr6_98837428_98837429_CT_C rs898072886 POU3F2 0.003 1 (0.9) 10 (5.8) 5.32E-4
  1. aPosition of variants. For example, chr7_140753336_140753336_A_T represents base A being replaced by T at position 140,753,336 of chromosome 7
  2. bThe annotation of variants with dbSNP identifiers by ANNOVAR
  3. cThe annotated genes of the variants by ANNOVAR
  4. dThe weights (importance) of the mutation features for the classification model
  5. eThe number of samples (percent of samples) with the variants among LCC samples
  6. fThe number of samples (percent of samples) with the variants among RCC samples
  7. gThe P-value from Fisher’s exact test for each variant