Research

GBSA Software Research (Dr. Benoukraf & A/Prof Soong) Featured in NewsRX

Study Data from National University of Singapore Provide New Insights into Nucleic Acids Research

2013 MAR 12 (NewsRx) — By a News Reporter-Staff News Editor at Life Science Weekly — Investigators discuss new findings in Nucleic Acids Research. According to news reporting out of Singapore by NewsRx editors, research stated, “High-throughput sequencing is increasingly being used in combination with bisulfite (BS) assays to study DNA methylation at nucleotide resolution. Although several programmes provide genome-wide alignment of BS-treated reads, the resulting information is not readily interpretable and often requires further bioinformatic steps for meaningful analysis.” Our news journalists obtained a quote from the research from the National University of Singapore, “Current post-alignment BS-sequencing programmes are generally focused on the gene-specific level, a restrictive feature when analysis in the non-coding regions, such as enhancers and intergenic microRNAs, is required. Here, we present Genome Bisulfite Sequencing Analyser (GBSA), a free open-source software capable of analysing whole-genome bisulfite sequencing data with either a gene-centric or gene-independent focus. Through analysis of the largest published data sets to date, we demonstrate GBSA’s features in providing sequencing quality assessment, methylation scoring, functional data management and visualization of genomic methylation at nucleotide resolution. Additionally, we show that 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.” According to the news editors, the research concluded: “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.”

For more information on this research see: GBSA: a comprehensive software for analysing whole genome bisulfite sequencing data. Nucleic Acids Symposium Series, 2013;41(4):e55. (Oxford University Press – www.oup.com/; Nucleic Acids Symposium Series – nass.oxfordjournals.org) Our news journalists report that additional information may be obtained by contacting T. Benoukraf, Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore and Dept. of Pathology, National University of Singapore, Singapore 117599, Singapore. Keywords for this news article include: Asia, Software, Nucleic Acids Research. Our reports deliver fact-based news of research and discoveries from around the world. Copyright 2013, NewsRx LLC

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