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Table 2 Significantly mutated genes in tumor samples of 510 patients with LUAD. The genes were classified as oncogene (OG) and tumor suppressor gene (TSG) based on their scores and the cancer gene census information by SomInaClust R package

From: Analysis of genomic and transcriptomic variations as prognostic signature for lung adenocarcinoma

Gene # Mutations qDG OG Score TSG Score Classification CGCa
KRAS 143 1.97e-250 97.8 0 OG Dom
TP53 253 2.52e-135 79.7 38 TSG Rec
EGFR 73 8.97e-84 73.8 10 OG Dom
STK11 83 4.6e-61 27.8 72 TSG Rec
BRAF 44 8.07e-51 67.5 7.4 OG Dom
RBM10 39 9.06e-31 0 78.9 TSG NA
NF1 63 5.37e-25 0 54.2 TSG Rec
MGA 52 6.46e-23 0 58.3 TSG NA
SETD2 44 1.34e-20 16.7 58.1 TSG Rec
RB1 32 4.99e-20 0 68.8 TSG Rec
PIK3CA 27 1.36e-19 61.5 0 OG Dom
ATM 48 5.18e-18 25 45.7 TSG Rec
CTNNB1 21 3.32e-15 61.1 12.5 OG Dom
ARID1A 30 1.76e-14 12.5 60 TSG Rec
ARID2 29 2.83e-12 0 57.1 TSG Rec
SMARCA4 48 2.23e-11 16.7 42.9 TSG Rec
CSMD3 324 6.25e-10 0 17.5 NA NA
ATF7IP 17 1.84e-08 0 71.4 TSG NA
KEAP1 90 1.91e-08 9.8 24.1 TSG NA
NFE2L2 14 2.83e-07 58.3 0 OG Dom
KDM5C 16 1.76e-06 0 60 TSG Rec
ERBB2 13 6.94e-06 55.6 14.3 OG Dom
LRP1B 267 6.04e-05 0 15.6 NA Rec
HMCN1 97 8.93e-05 0 24.1 TSG NA
MAP2K1 9 0.000263 66.7 0 OG Dom
APC 24 0.000272 0 37.5 TSG Rec
PNISR 6 0.000626 0 83.3 TSG NA
RPL5 7 0.000626 0 83.3 TSG Dom
GNAS 19 0.000962 28.6 0 OG Dom
COL11A1 129 0.00139 0 18.1 NA NA
EPHA5 66 0.00221 0 23.4 TSG NA
TTK 18 0.00221 0 41.2 TSG NA
FBXW7 12 0.0028 40 50 TSG Rec
DMD 99 0.00349 0 18.8 NA NA
SMAD4 20 0.00379 30 35 TSG Rec
FER 16 0.0043 0 46.2 TSG NA
MARK1 21 0.0043 0 46.2 TSG NA
TEP1 29 0.0043 0 46.2 TSG NA
ATRX 35 0.00463 0 26.5 TSG Rec
CDKN2A 21 0.00585 37.5 35 TSG Rec
MYO9A 19 0.00615 0 42.9 TSG NA
ZNF800 17 0.00615 0 42.9 TSG NA
CMTR2 26 0.00674 0 55.6 TSG NA
RASA1 9 0.00674 0 55.6 TSG NA
CDKN1B 5 0.00674 0 80 TSG Rec
DHX15 7 0.00674 0 80 TSG NA
IQGAP2 28 0.00816 0 40 TSG NA
LTN1 19 0.00816 0 40 TSG NA
SMARCA1 19 0.00816 0 40 TSG NA
SPTA1 164 0.00971 0 17.6 NA NA
FHOD3 31 0.0122 0 30.4 TSG NA
CPVL 8 0.0161 0 66.7 TSG NA
MAP3K12 8 0.0161 0 66.7 TSG NA
TOP2B 9 0.0161 0 66.7 TSG NA
ROCK1 21 0.0163 0 35.3 TSG NA
PBRM1 12 0.0172 0 45.5 TSG Rec
AKAP6 40 0.0195 0 28 TSG NA
SENP1 3 0.0241 0 100 TSG NA
SP1 4 0.0241 0 100 TSG NA
WISP3 4 0.0241 0 100 TSG NA
RAD50 13 0.0243 20 41.7 TSG NA
COL28A1 19 0.0243 0 41.7 TSG NA
SCAF8 18 0.0243 0 41.7 TSG NA
STK31 19 0.0243 0 41.7 TSG NA
IDH1 6 0.0248 40 25 TSG Dom
USH2A 240 0.0263 0 13.2 NA NA
YLPM1 23 0.0269 0 31.6 TSG NA
IQUB 12 0.0272 0 57.1 TSG NA
MARK2 10 0.0272 0 57.1 TSG NA
NAA15 8 0.0272 0 57.1 TSG NA
CDH10 99 0.028 0 16.4 NA NA
AKT1 3 0.0296 66.7 0 OG Dom
RAF1 7 0.031 66.7 0 OG Dom
VPS13C 39 0.0332 0 25 TSG NA
ZBBX 28 0.0333 0 30 TSG NA
DST 67 0.0333 0 19.1 NA NA
KMT2C 52 0.0388 0 18.8 NA Rec
DGKB 38 0.0431 0 28.6 TSG NA
MAP2K4 8 0.045 33.3 50 TSG Rec
FBN2 93 0.045 0 20.5 TSG NA
B2M 8 0.045 0 50 TSG Rec
BAP1 8 0.045 0 50 TSG Rec
  1. aCancer gene census (Dom Dominant, Rec Recessive)