An open-source software tool capable of analysing whole-genome bisulfite sequencing data with either a gene-centric or gene-independent focus. GBSA’s output can be easily integrated with other high-throughput sequencing data, such as RNA-Seq or ChIP-seq, to elucidate the role of methylated intergenic regions in gene regulation. In essence, GBSA allows an investigator to explore not only known loci but also all the genomic regions, for which methylation studies could lead to the discovery of new regulatory mechanisms.

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nicolas

Good features and nice user interface

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GBSA classification

GBSA specifications

Software type:
Package
Restrictions to use:
Academic users only
Output format:
Bedgraph, tab-delimited text, images, gene browser
Programming languages:
Python
Stability:
Stable
Interface:
Command line interface, Graphical user interface
Input format:
BSP, BS-Seeker (text)
Operating system:
Unix/Linux, Windows
Computer skills:
Advanced

Publications

  • (Benoukraf et al., 2013) GBSA: a comprehensive software for analysing whole genome bisulfite sequencing data. Nucleic acids research.
    Published on: 2013 Feb 01
    PMID: 23268441

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Maintainer

Credits

Institution(s)

Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore; Department of Pathology, National University of Singapore, Singapore 117599, Singapore

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