title: The dJ/dS Ratio Test Reveals Hundreds of Novel Putative Cancer Drivers.
abstract: Computational tools with a balanced sensitivity and specificity in identification of candidate cancer drivers are highly desired. In this study, we propose a new statistical test, namely the dJ/dS ratio test, to compute the relative mutation rate of exon/intron junction sites (dJ) to synonymous sites (dS); observation of dJ/dS ratio larger than 1 in cancer indicates positive selection for splicing deregulation, a signature of cancer driver genes. Using this method, we analyzed the data from The Cancer Genome Atlas and identified hundreds of novel putative cancer drivers. Interestingly, these genes are highly enriched in biological processes related to the development and maintenance of multicellularity, paralleling a previous finding that cancer evolves back to be unicellular by knocking down the multicellularity-associated genetic network.
authors: Key Laboratory of Gene Engineering of Ministry of Education, College of Ecology and Evolution, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China.
authors: Han
authors: H
authors: Chen
authors: Key Laboratory of Gene Engineering of Ministry of Education, College of Ecology and Evolution, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China xingk@mail.sysu.edu.cn.
authors: Ke
authors: K
authors: Xing
authors: Key Laboratory of Gene Engineering of Ministry of Education, College of Ecology and Evolution, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China Collaborative Innovation Center of High Performance Computing, National University of Defense Technology, Changsha 410073, China State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China.
authors: Xionglei
authors: X
authors: He
mesh_terms: D000818:Animals; D015972:Gene Expression Regulation, Neoplastic; D053263:Gene Regulatory Networks; D052138:Genes, Neoplasm; D006801:Humans; D008957:Models, Genetic; D009369:Neoplasms / Q000235:genetics* / Q000378:metabolism; D022821:RNA Splice Sites; D012326:RNA Splicing / Q000235:genetics
chemical_list: D022821:RNA Splice Sites
keywords: cancer driver; dJ/dS ratio test; positive selection