Supporting data for "BS-virus-finder: virus integration calling using bisulfite-sequencing data"

Dataset type: Software
Data released on November 16, 2017

Gao S; Hu X; Xu F; Gao C; Xiong K; Zhao X; Chen H; Zhao S; Wang M; Fu D; Zhao X; Bai J; Mao L; Li B; Wu S; Wang J; Li S; Yang H; Bolund L; Pedersen CNS (2017): Supporting data for "BS-virus-finder: virus integration calling using bisulfite-sequencing data" GigaScience Database. http://dx.doi.org/10.5524/100377

DOI10.5524/100377

DNA methylation plays a key role in regulating gene expression and carcinogenesis. Extant methylation bisulfite sequencing (BS) researches mainly focus on calling SNP, DMR, and ASM, instead of virus integration positions. We developed a new and easy-to-use software, named as BS-virus-finder (https://github.com/BioInfoTools/BSVF), to detect viral integration breakpoints in whole human genomes. BS-virus-finder demonstrates moderate sensitivity and specificity, and is useful to be applied in epigenetic researches and to reveal the relationship between viral integration and DNA methylation. BS-virus-finder is the first software to detect virus by using bisulfite sequencing data.

Additional details

Read the peer-reviewed publication(s):

Gao, S., Hu, X., Xu, F., Gao, C., Xiong, K., Zhao, X., … Pedersen, C. N. S. (2017). BS-virus-finder: virus integration calling using bisulfite sequencing data. GigaScience, 7(1). doi:10.1093/gigascience/gix123

Additional information:

https://github.com/BioInfoTools/BSVF

Accessions (data included in GigaDB):

BioProject: PRJNA400455

Accessions (data not in GigaDB):

GenBank: X04615.1
GenBank: GRCh38.p11





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
PLC/PRF/59606HumanhumanHomo sapiens Description:PLC/PRF/5 (Alexander) hepatoma cell li...
Sample source:American Type Culture Collection
Alternative accession-BioSample:SRS2501546
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Displaying 1-1 of 1 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
GitHub archivearchive987.42 KB2017-11-13
mixed archiveUNKNOWN476.48 MB2017-11-13
ReadmeTEXT1.39 KB2017-11-13
Displaying 1-3 of 3 File(s).
Funding body Awardee Award ID Comments
Shenzhen Municipal Government of China Shengbin Li ZDSYS201507301424148
Young Scientists Fund of the National Natural Science Foundation of China Shengjie Gao 81602477
Date Action
November 16, 2017 Dataset publish
January 9, 2018 Manuscript Link added : 10.1093/gigascience/gix123