DriverDB: an exome sequencing database for cancer driver gene identification.

Cheng WC, Chung IF, Chen CY, Sun HJ, Fen JJ, Tang WC, Chang TY, Wong TT, Wang HW.

Source

Pediatric Neurosurgery, Department of Surgery, Cheng Hsin General Hospital, Taipei 11220, Taiwan, VGH-YM Genomic Research Center, National Yang-Ming University, Taipei 11221, Taiwan, Institute of Biomedical Informatics, National Yang-Ming University, Taipei 11221, Taiwan, Information Technology Office, Taipei Veterans General Hospital, Taipei 11217, Taiwan, Institute of Microbiology and Immunology, National Yang-Ming University, Taipei 11221, Taiwan and Department of Education and Research, Taipei City Hospital, Taipei 10341, Taiwan.

Abstract

Exome sequencing (exome-seq) has aided in the discovery of a huge amount of mutations in cancers, yet challenges remain in converting oncogenomics data into information that is interpretable and accessible for clinical care. We constructed DriverDB (http://ngs.ym.edu.tw/driverdb/), a database which incorporates 6079 cases of exome-seq data, annotation databases (such as dbSNP, 1000 Genome and Cosmic) and published bioinformatics algorithms dedicated to driver gene/mutation identification. We provide two points of view, 'Cancer' and 'Gene', to help researchers to visualize the relationships between cancers and driver genes/mutations. The 'Cancer' section summarizes the calculated results of driver genes by eight computational methods for a specific cancer type/dataset and provides three levels of biological interpretation for realization of the relationships between driver genes. The 'Gene' section is designed to visualize the mutation information of a driver gene in five different aspects. Moreover, a 'Meta-Analysis' function is provided so researchers may identify driver genes in customer-defined samples. The novel driver genes/mutations identified hold potential for both basic research and biotech applications.