Skip to main content

Table 1 Transformed genotype dataset for the 18 mutation sites and the 58 samples

From: Using single cell sequencing data to model the evolutionary history of a tumor

Gene (site)
Sample ID 1 2 3 5 6 7 8 9 12 16 18 19 20 22 24 25 26 29 30 31 36 37 40 41 43 44 45 47 48
PDE4DIP (A →G) - - - 1 1 0 - 0 - - - 0 - - - - - - 1 - - - 0 - 0 - 1 0 -
NTRK1 (A →G) - 0 - - 1 - - - - 2 - 2 1 1 - - 1 - 2 - - 1 - - 0 0 - - 2
SESN2 (C →T) 1 1 1 - - - - 1 1 1 2 - - 1 - - - 0 0 1 - 2 2 - 0 2 0 1 1
ARHGAP5 (G →A) - 1 - - - 0 0 2 - - - - 0 1 1 - - - - 0 - 1 - - 0 - 0 0 -
DNAJC17 (C →G) 1 - 1 - - - - 0 - 1 0 - - - - - - 2 1 - - - - - 1 2 - 2 1
USP32 (C →T) - - - 1 0 - - 1 - - - - 0 0 0 - - - 0 - - - - - - 1 0 1 0
ANAPC1 (G →A) - - - 1 0 1 0 1 - 1 0 - 1 1 0 1 1 0 2 - 0 - - 0 0 0 0 1 -
RETSAT (C →T) - 0 - 1 0 0 - - - 0 - - - 0 - 0 0 - 0 - 0 - 0 - 0 - 0 0 -
ST13 (G →A) 0 0 - - - - 0 1 1 1 - 0 1 - - 1 - - 1 0 1 1 - 0 0 1 - 1 -
DLEC1 (T →C) - - - - - - - 1 - 1 - - 0 2 2 2 - - 1 - - 1 - - - - 2 1 1
FRG1 (G →A) 0 0 1 0 0 - 0 - 0 0 0 0 - - - 0 - - 0 - - - 0 0 0 - 0 1 0
DMXL1 (G →A) 2 - - 1 - 0 - 1 - 2 - - - 2 - 0 0 1 1 - 2 - 1 - 0 - - - -
FAM115C (T →C) - - - - 0 - - - - - - 0 - - - - 0 - - - - - - - - 2 0 0 -
MLL3 (C →T) - - 0 - 0 0 - 0 0 0 1 - 0 - 0 - 0 0 1 0 1 1 0 - 0 0 0 - -
ABCB5 (G →T) 1 - - 1 - - 1 2 1 0 1 - - 0 0 - - 2 2 - - 2 - - - - 1 - -
ASNS (T →A) 0 0 0 0 0 0 0 1 - 0 0 0 - 0 0 1 1 0 - 0 1 1 1 - 0 1 0 - 0
PABPC1 (C →T) 0 0 0 0 0 0 0 - 1 - 0 - - 0 0 0 - - 0 0 - 0 0 - 1 0 - 0 0
TOP1MT (A →G) - - - - - - - - - - - 0 - - - - - - - 0 2 2 1 - - 1 - 1 -
Gene (site)
Sample ID 49 50 52 54 56 60 61 63 66 69 70 72 73 74 76 78 79 80 82 86 87 88 89 90 91 93 94 97 100
PDE4DIP (A →G) - - - - 1 - 0 - - - 0 - 0 1 0 0 - 0 0 1 - 0 - - - - 1 1 -
NTRK1 (A →G) - 2 1 0 - - 1 - - 0 1 1 - 0 0 1 1 0 1 - 0 - - 0 - 0 0 1 2
SESN2 (C →T) 1 0 0 0 1 - 1 0 1 - - 1 0 1 2 2 - 1 1 1 2 1 0 0 1 2 2 1 1
ARHGAP5 (G →A) 1 0 - - 0 0 - - 0 - 1 0 0 0 - 0 0 1 1 - 0 0 - - 0 1 0 1 0
DNAJC17 (C →G) 1 - 1 0 1 1 - 1 1 1 1 2 - 1 0 1 0 1 1 - 1 - 0 - - 1 - 2 1
USP32 (C →T) 0 0 1 0 1 0 0 - 1 0 0 - - - - - 0 - 0 1 - 0 1 1 - 0 0 0 -
ANAPC1 (G →A) 0 0 1 - 0 - - 0 0 1 - 0 - 0 0 - - - 1 0 - 0 0 - - - 0 - 0
RETSAT (C →T) 1 0 1 0 - 0 1 0 0 1 0 0 - 0 1 1 - 1 0 0 - 0 0 - 1 1 0 0 -
ST13 (G →A) - 0 1 - 1 1 1 1 1 1 0 1 - 0 - 0 1 1 0 1 1 1 0 1 1 0 - 1 0
DLEC1 (T →C) - - - 2 - 2 - - 1 - - - - 2 2 0 1 - - - - - - - 0 2 - - 1
FRG1 (G →A) 0 0 0 - 0 0 1 1 0 - 0 0 0 0 0 0 0 0 1 1 0 - 1 0 - 0 0 0 0
DMXL1 (G →A) 1 - 1 - 1 1 0 0 1 - 1 - - - - 2 - - - 0 - - 0 - 1 - 0 2 -
FAM115C (T →C) - - - - 1 - - - - - - - - 0 - 1 - - - - 0 - 1 - - - - - -
MLL3 (C →T) 0 1 1 1 - 1 0 - 0 - 0 - 0 0 - - 0 0 0 0 0 - 0 0 - 1 - - 0
ABCB5 (G →T) - - - - 1 1 1 - 1 0 0 - - 1 0 - 1 0 - 1 - - 1 - - - - 0 -
ASNS (T →A) - 1 - 0 - 1 - - 0 - 0 0 - 0 0 1 0 1 0 0 0 0 0 0 0 - - 1 0
PABPC1 (C →T) 0 0 0 0 - 0 - 0 0 0 0 - - 0 - 0 - 0 1 0 0 - 0 - 0 1 - 0 0
TOP1MT (A →G) 1 2 - 2 2 0 - - - - 1 - 1 - 1 - - 1 2 - - - - 2 1 - 0 - 1
  1. The first column shows the 18 genes which have the 18 mutation sites and the corresponding point mutations for the sites. The 58 sample ids represent the sample ids used in the paper [2]. 0 represents homozygous wildtype, 1 represents heterozygous mutation and 2 represents homozygous mutation. - represents missing entry. For example, 0, 1 and 2 of the site for SESN2 represent DNA base composition of CC, CT and TT, respectively.