國家衛生研究院 NHRI:Item 3990099045/10281
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    題名: TEA: The epigenome platform for Arabidopsis methylome study
    作者: Su, SY;Chen, SH;Lu, IH;Chiang, YS;Wang, YB;Chen, PY;Lin, CY
    貢獻者: Division of Biostatistics and Bioinformatics
    摘要: Background: Bisulfite sequencing (BS-seq) has become a standard technology to profile genome-wide DNA methylation at single-base resolution. It allows researchers to conduct genome-wise cytosine methylation analyses on issues about genomic imprinting, transcriptional regulation, cellular development and differentiation. One single data from a BS-Seq experiment is resolved into many features according to the sequence contexts, making methylome data analysis and data visualization a complex task. Results: We developed a streamlined platform, TEA, for analyzing and visualizing data from whole-genome BS-Seq (WGBS) experiments conducted in the model plant Arabidopsis thaliana. To capture the essence of the genome methylation level and to meet the efficiency for running online, we introduce a straightforward method for measuring genome methylation in each sequence context by gene. The method is scripted in Java to process BS-Seq mapping results. Through a simple data uploading process, the TEA server deploys a web-based platform for deep analysis by linking data to an updated Arabidopsis annotation database and toolkits. Conclusions: TEA is an intuitive and efficient online platform for analyzing the Arabidopsis genomic DNA methylation landscape. It provides several ways to help users exploit WGBS data.
    日期: 2016-12-22
    關聯: BMC Genomics. 2016 Dec 22;17(Suppl. 13):Article number 1027.
    Link to: http://dx.doi.org/10.1186/s12864-016-3326-6
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1471-2164&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000393278000006
    Cited Times(Scopus): http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=85006743929
    顯示於類別:[林仲彥(1999-2005)] 期刊論文

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