| Literature DB >> 29267855 |
Shengjie Gao1,2,3,4,5,6, Xuesong Hu2,3, Fengping Xu3,7,8, Changduo Gao9, Kai Xiong10, Xiao Zhao2,11, Haixiao Chen3,8, Shancen Zhao3,4, Mengyao Wang3, Dongke Fu2, Xiaohui Zhao12, Jie Bai3, Likai Mao3, Bo Li2,3, Song Wu5, Jian Wang3, Shengbin Li2,13,14, Huangming Yang3,4,11, Lars Bolund6, Christian N S Pedersen1.
Abstract
Background: DNA methylation plays a key role in the regulation of gene expression and carcinogenesis. Bisulfite sequencing studies mainly focus on calling single nucleotide polymorphism, different methylation region, and find allele-specific DNA methylation. Until now, only a few software tools have focused on virus integration using bisulfite sequencing data. Findings: We have developed a new and easy-to-use software tool, named BS-virus-finder (BSVF, RRID:SCR_015727), to detect viral integration breakpoints in whole human genomes. The tool is hosted at https://github.com/BGI-SZ/BSVF. Conclusions: BS-virus-finder demonstrates high sensitivity and specificity. It is useful in epigenetic studies and to reveal the relationship between viral integration and DNA methylation. BS-virus-finder is the first software tool to detect virus integration loci by using bisulfite sequencing data.Entities:
Keywords: bisulfite sequencing; carcinogenesis; virus integration
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Year: 2018 PMID： 29267855 PMCID： PMC5788064 DOI： 10.1093/gigascience/gix123
Source DB: PubMed Journal: Gigascience ISSN： 2047-217X Impact factor: 6.524