Table 2 Gene characteristics associated with the number of missense mutations per gene in univariate regression models
From: Gene characteristics predicting missense, nonsense and frameshift mutations in tumor samples
Predictor | T-test | P-value | Beta (ß) |
|---|---|---|---|
Number of silent mutations in the gene | 289.9 | 2.5 × 10− 1409 | 0.92 |
Number of potential missense mutation sites | 167.5 | 5.8 × 10− 805 | 0.80 |
Gene size in nucleotides | 167.1 | 1.6 × 10− 803 | 0.80 |
“reptime” from MutsigCV | 28.6 | 1.4 × 10− 126 | 0.23 |
Relative replication time | −27.5 | 1.0 × 10− 124 | 0.21 |
Gene expression in CCLE cancer cell lines* | −26.5 | 9.6 × 10− 118 | − 0.21 |
“hic” from MutsigCV | −24.5 | 6.6 × 10− 113 | − 0.20 |
“expr” from MutsigCV | −16.8 | 1.5 × 10− 54 | − 0.14 |
Percentage of “CpG” | − 16.3 | 1.7 × 10− 53 | −0.02 |
Percentage of “G” | − 15.9 | 3.1 × 10− 51 | −0.13 |
Nucleotide diversity | 14.7 | 5.5 × 10− 45 | 0.12 |
Percentage of “A” | 11.2 | 5.7 × 10− 28 | 0.10 |
Chromatin accessibility | −7.7 | 3.1 × 10− 51 | −0.06 |
Percentage of “C” | −7.1 | 5.5 × 10− 45 | − 0.06 |
Percentage of “T” | 7.0 | 5.7 × 10− 28 | 0.06 |
Density of SNPs (1 K Genomes Project) | −3.7 | 1.6 × 10− 14 | − 0.03 |
Evolutionary conservation | 1.5 | 1.1 × 10− 12 | 0.01 |