HBS-Tools for Hairpin Bisulfite Sequencing Data Processing and Analysis

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dc.contributor.authorSun, Ming-anen
dc.contributor.authorVelmurugan, Karthik Rajaen
dc.contributor.authorKeimig, Daviden
dc.contributor.authorXie, Hehuang Daviden
dc.contributor.departmentBiological Sciencesen
dc.contributor.departmentFralin Life Sciences Instituteen
dc.date.accessioned2017-09-18T09:40:27Zen
dc.date.available2017-09-18T09:40:27Zen
dc.date.issued2015-12-20en
dc.date.updated2017-09-18T09:40:27Zen
dc.description.abstractThe emerging genome-wide hairpin bisulfite sequencing (hairpin-BS-Seq) technique enables the determination of the methylation pattern for DNA double strands simultaneously. Compared with traditional bisulfite sequencing (BS-Seq) techniques, hairpin-BS-Seq can determine methylation fidelity and increase mapping efficiency. However, no computational tool has been designed for the analysis of hairpin-BS-Seq data yet. Here we present HBS-tools, a set of command line based tools for the preprocessing, mapping, methylation calling, and summarizing of genome-wide hairpin-BS-Seq data. It accepts paired-end hairpin-BS-Seq reads to recover the original (pre-bisulfite-converted) sequences using global alignment and then calls the methylation statuses for cytosines on both DNA strands after mapping the original sequences to the reference genome. After applying to hairpin-BS-Seq datasets, we found that HBS-tools have a reduced mapping time and improved mapping efficiency compared with state-of-the-art mapping tools. The HBS-tools source scripts, along with user guide and testing data, are freely available for download.en
dc.description.versionPublished versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.citationMing-an Sun, Karthik Raja Velmurugan, David Keimig, and Hehuang Xie, “HBS-Tools for Hairpin Bisulfite Sequencing Data Processing and Analysis,” Advances in Bioinformatics, vol. 2015, Article ID 760423, 4 pages, 2015. doi:10.1155/2015/760423en
dc.identifier.doihttps://doi.org/10.1155/2015/760423en
dc.identifier.urihttp://hdl.handle.net/10919/78953en
dc.language.isoenen
dc.publisherHindawien
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.holderCopyright © 2015 Ming-an Sun et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleHBS-Tools for Hairpin Bisulfite Sequencing Data Processing and Analysisen
dc.title.serialAdvances in Bioinformaticsen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

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