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2011

NGSmethDB: a database for next-generation sequencing single-cytosine-resolution DNA methylation data

7 years 9 months ago
NGSmethDB: a database for next-generation sequencing single-cytosine-resolution DNA methylation data
Next-generation sequencing (NGS) together with bisulphite conversion allows the generation of whole genome methylation maps at single-cytosine resolution. This allows studying the absence of methylation in a particular genome region over a range of tissues, the differential tissue methylation or the changes occurring along pathological conditions. However, no database exists fully addressing such requirements. We propose here NGSmethDB (http://bioinfo2.ugr.es/NGSmethDB/gbrowse/) for the storage and retrieval of methylation data derived from NGS. Two cytosine methylation contexts (CpG and CAG/CTG) are considered. Through a browser interface coupled to a MySQL backend and several data mining tools, the user can search for methylation states in a set of tissues, retrieve methylation values for a set of tissues in a given chromosomal region, or display the methylation of promoters among different tissues. NGSmethDB is currently populated with human, mouse and Arabidopsis data, but other m...
Michael Hackenberg, Guillermo Barturen, José
Added 16 Sep 2011
Updated 16 Sep 2011
Type Journal
Year 2011
Where NAR
Authors Michael Hackenberg, Guillermo Barturen, José L. Oliver
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