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Data released on November 16, 2017

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

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, C, N (2017): Supporting data for "BS-virus-finder: virus integration calling using bisulfite-sequencing data" GigaScience Database. http://dx.doi.org/10.5524/100377 RIS BibTeX Text

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.

Contact Submitter

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

Keywords:

virus integration bisulfite sequencing carcinogenesis 

Software

http://gigadb.org/images/data/cropped/100377.jpg

Funding:

  • Funding body - Shenzhen Municipal Government of China
  • Location - China
  • Award ID - ZDSYS201507301424148
  • Awardee - Shengbin Li
  • Funding body - Young Scientists Fund of the National Natural Science Foundation of China
  • Award ID - 81602477
  • Awardee - Shengjie Gao

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

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).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
ReadmeTEXT1.39 KB2017-11-13
GitHub archivearchive987.42 KB2017-11-13
mixed archiveUNKNOWN476.48 MB2017-11-13
Displaying 1-3 of 3 File(s).

History:

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