DrugCVar: a platform for evidence-based drug annotation for genetic variants in cancer.

Abstract

MOTIVATION:

Targeted therapy for cancer-related genetic variants is critical for precision medicine. Although several databases including The Clinical Interpretation of Variants in Cancer (CIViC), The Oncology Knowledge Base (OncoKB), The Cancer Genome Interpreter (CGI) and My Cancer Genome (MCG) provide clinical interpretations of variants in cancer, the clinical evidence was limited and miscellaneous. In this study, we developed the DrugCVar database, which integrated our manually curated cancer variant-drug targeting evidence from literature and the interpretations from the public resources.

RESULTS:

In total, 7830 clinical evidences for cancer variant-drug targeting were integrated and classified into 10 evidence tiers. Searching and browsing functions were provided for quick queries of cancer variant-drug targeting evidence. Also, batch annotation module was developed for user-provided massive genetic variants in various formats. Details, such as the mutation function, location of the variants in gene and protein structures and mutation statistics of queried genes in various tumor types, were also provided for further investigations. Thus, DrugCVar could serve as a comprehensive annotation tool to interpret potential drugs for cancer variants especially the massive ones from clinical cancer genomics studies.

AVAILABILITY AND IMPLEMENTATION:

The database is available at http://drugcvar.omicsbio.info.

SUPPLEMENTARY INFORMATION:

Supplementary data are available at Bioinformatics online.

• Authors: Xiaolong Zhang, Zhikai Qian, Ye Wang, Qingfeng Zhang, Kai Yu, Yongqiang Zheng, Zekun Liu, Qi Zhao, Ze-Xian Liu
• Journal: Bioinformatics (Oxford, England) (Bioinformatics) Vol. 38 Issue 11 Pg. 3094-3098 (05 26 2022) ISSN: 1367-4811 [Electronic] England
• PMID: 35426945 (Publication Type: Journal Article, Research Support, Non-U.S. Gov't)
• Copyright: © The Author(s) 2022. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: [email protected].

Topics

• Humans
• Databases, Genetic
• Genomics
• Neoplasms (drug therapy, genetics)
• Knowledge Bases
• Precision Medicine
• Molecular Sequence Annotation
• Genetic Variation
• Software