Oncodrive-fm

[…] of mutation signature 3 (supplementary fig. ). out of the identified genes with likely functional relevance, ddx3x, bcor, and stat3 were identified in ankl as recurrent by both the mutsigcv and oncodrive-fm algorithms (fig. , supplementary data ). moreover, these genes were abundantly expressed in nk cells, further supporting their role in ankl pathogenesis (fig. , supplementary data )., […]

[…] development of computational tools that are able to detect moderate or low-frequency mutated driver genes is necessary to provide a more complete understanding of cancer genomics. methods including oncodrive-fm () aim to identify genes with a bias toward the enrichment of variants with a high fi, as measured by the sorting intolerant from tolerant algorithm (), polyphen2 () and mutation […]

[…] above, we distinguish these two groups of genes – gems and driver genes, based on whether the mutations comprise of any mutation or only nonsynonymous ones respectively. to this end, we used oncodrive fm an approach to detect genes that tend to accumulate functional somatic mutations across a cohort of cancer samples. a significant trend towards the accumulation of such functional […]

[…] low or middle mutation frequencies and were first determined as driver genes in glioma, such as bcor, frg1b, gabra6 and lrp1b. in addition, multiple idh1-dependent driver genes were also detected by oncodrive-fm and drgap, for instance notch1 and arid1a, suggesting these drivers might be therapeutic targets for idh1-mutated gliomas., in addition, we also uncovered 428 differentially expressed […]

[…] are working in a distinctive way and it yields various outputs. for example, algorithms such as active driver focus on phosphorylation and kinase domain site. similarly dendrix, mdp finder, oncodrive-fm and mutsigcv predict based on mutational specificity, high impact mutational accumulation and patient-specific mutations respectively. hence, driver db associated tools provide […]