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Table 4 Correlation of genes with SNVs and amplifications and deletions

From: Whole genome sequencing reveals potential targets for therapy in patients with refractory KRASmutated metastatic colorectal cancer

Sample Chr Gene name SNV location CNV variant type Change associated with variant Start End Correlation
CLN2 8 ADAMDEC1 24312932 CNV-Loss -1.098323504 24298000 24318700 -
  18 BCL2 59136317 CNV-Loss -1.142019005 58946900 59136800 -
  17 C17orf39 17905985 CNV-Loss -1.086327397 17886900 17909200 -
  13 DNAJC3 95127539 CNV-Gain 1.034261883 95159600 95201700 +
  18 DOK6 65495961 CNV-Loss -1.080170349 65220300 65659400 -
  19 EEF2 3929160 CNV-Loss -1.10433666 3927700 3935600 -
  13 MED4 47567121 CNV-gain 1.011225847 47549300 47562800 +
  15 MORF4L1 76965549 CNV-Loss -1.25642835 76953100 76976400 -
  19 OR1M1 9065467 CNV-Loss -1.185833041 9065000 9065800 -
  13 PCDH17 57105203 CNV-Gain 1.158413612 57105000 57140500 +
  8 PI15 75900191 CNV-Gain 1.077222314 75901700 75924000 +
  15 PML 72124335 CNV-Loss -1.130706684 72074500 72122000 -
  18 PTPRM 8384547 CNV-Loss -1.028666588 7637600 8387100 -
  19 PVRL2 50083243 CNV-Loss -1.070323897 50042300 50073700 -
  19 SHANK1 55864301 CNV-Loss -1.135111902 55859100 55907600 -
  18 SMAD4 46858795 CNV-Loss -1.077097357 46827500 46855600 -
  15 THSD4 69844560 CNV-Loss -1.12539172 69808500 69856700 -
  8 VPS13B 100723477 CNV-Gain 1.06690452 100098000 100957000 +
  19 XAB2 7594144 CNV-Loss -1.039001256 7596500 7599800 -
  19 ZNF235 49483380 CNV-Loss -1.210566986 49486200 49499300 -
  19 ZNF480 57510937 CNV-Loss -1.12807401 57496100 57517900 -
  19 ZNF83 57808787 CNV-Loss -1.330073623 57808100 57809600 -
CLN3 4 ANKRD17 74175875 CNV-Gain 1.050578956 74176700 74257700 +
  2 APOB 21086873 CNV-Gain 1.381146277 21078200 21119700 +
  1 ARID1A 26973896 CNV-Gain 1.088551435 26707600 26977900 +
  3 ATP13A5 194544518 CNV-Gain 1.074832063 194495900 194576400 +
  2 CLEC4F 70897420 CNV-Gain 1.474467603 70890000 70900800 +
  1 FNDC7 109063011 CNV-Gain 1.060116535 109071800 109085900 +
  3 GADL1 30871204 CNV-Gain 1.083837201 30750200 30822400 +
  4 GUCY1A3 156862650 CNV-Gain 1.051035883 156845700 156866700 +
  4 INPP4B 143222686 CNV-Gain 1.071823665 143169400 143560600 +
  2 IWS1 127960697 CNV-Gain 1.157172502 127955100 127999800 +
  3 KCNMB2 180028679 CNV-Gain 1.036705549 180021600 180027700 +
  12 KRAS 25289551 CNV-Gain 1.035184393 25274800 25275900 +
  2 LRP2 169845248 CNV-Gain 1.274350136 169693500 169926300 +
  3 LSG1 195872054 CNV-Gain 1.046959963 195844100 195855800 +
  1 MACF1 39573148 CNV-Gain 1.075279401 39322700 39722600 +
  3 MITF 70011193 CNV-Gain 1.055910933 70070200 70096500 +
  5 PAPD4 78951267 CNV-Gain 1.023426699 78969500 78969700 +
  2 PCBP1 70168678 CNV-Gain 1.147337373 70169200 70169400 +
  4 PDE5A 120666238 CNV-Gain 1.066043219 120655300 120742100 +
  1 PHTF1 114082912 CNV-Gain 1.075512922 114060600 114098600 +
  3 RPSA 39428561 CNV-Gain 1.099952073 39424200 39428600 +
  4 SH3BP2 2805228 CNV-Gain 1.208480128 2792500 2804000 +
  5 SLC6A19 1265596 CNV-Gain 1.142273516 1257300 1274700 +
  3 SMC4 161633513 CNV-Gain 1.02766824 161602500 161603100 +
  2 SMYD5 73305580 CNV-Gain 1.59092836 73301300 73306500 +
  1 SPOCD1 32038250 CNV-Gain 1.187067318 32029900 32040400 +
  1 ST6GALNAC3 76650550 CNV-Gain 1.08116566 76355200 76864700 +
  1 TMEM39B 32340671 CNV-Gain 1.071050645 32318800 32339600 +
  2 VPS54 63993297 CNV-Gain 1.158423232 63974100 64064600 +
  2 WDR35 20045755 CNV-Gain 1.180181947 19976800 20052800 +
  5 WWC1 167824543 CNV-Gain 1.083413977 167656200 167825900 +
CLN4 16 ABCC12 46688204 CNV-Gain 0.757287 46702800 46702800 +
  13 SPATA13 23761296 CNV-Gain 0.894588 23774800 23761296 +