Table 4 Gene characteristics associated with the number of FS mutations per gene in univariate linear regression model
From: Gene characteristics predicting missense, nonsense and frameshift mutations in tumor samples
Predictor | T-test | P-value | Beta (ß) |
|---|---|---|---|
Gene size in nucleotides | 65.6 | 1.7 × 10− 354 | 0.46 |
Number of silent mutations in the gene | 52.3 | 1.2 × 10− 288 | 0.39 |
Percentage of “A” | 14.6 | 2.8 × 10− 44 | 0.12 |
Percentage of “G” | −14.1 | 1.8 × 10− 41 | − 0.11 |
Percentage of “CpG” | −12.7 | 1.3 × 10−34 | − 0.10 |
Percentage of “C” | − 7.9 | 2.5 × 10− 15 | − 0.06 |
Evolutionary conservation | 6.4 | 1.6 × 10− 10 | 0.34 |
“reptime” from MutsigCV | 5.9 | 1.9 × 10− 9 | 0.05 |
Density of SNPs (1 K Genomes Project) | −5.7 | 7.6 × 10− 9 | − 0.05 |
“expr” from MutsigCV | −4.9 | 5.9 × 10− 7 | − 0.04 |
Relative replication time | − 4.8 | 9.4 × 10− 7 | − 0.04 |
Percentage of “T” | 4.2 | 1.6 × 10−5 | 0.03 |
“hic” from MutsigCV | − 3.4 | 3.4 × 10− 4 | − 0.03 |
Gene expression in CCLE ancer cell lines* | −1.7 | 4.7 × 10− 2 | − 0.01 |
Chromatin accessibility | −1.4 | 8.4 × 10− 2 | − 0.01 |
Nucleotide diversity | 0.2 | 4.2 × 10− 1 | 0.00 |