Mapping genomic features of tiling microarray data by TileMapper
Chapter in an edited book (author)


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AbstractThe recent revolution of genomics techniques has allowed the detection of various sequence features and biological variations on whole-genome scale. However, these high-resolution data present significant challenges for experimental biologists to understand and analyze. The conventional way is to use genome browsers to locate and visualize regions of interest. But it lacks user-friendly data mining functionality. Here we present a protocol that allows rapid annotation of genomic coordinate data by using TileMapper. Interesting biological annotations from large-scale genomic data, such as transcriptome analysis, chromatin immunoprecipitation on chip, or methyl-DNA immunoprecipitation (MeDIP) studies generated from the tiling microarrays and other platforms, could be analyzed without requiring computational skills. The outputs are saved in tabulated format, which permit flexible and simple processing in spreadsheet software, or to be exported to other pipelines for subsequent analysis.
All Author(s) ListHoi-Hung Cheung, Janek Claus, Sumeeta Singh, Chandan Sastry, Owen M. Rennert, Wai-Yee Chan, Tin-Lap Lee
All Editor(s) ListLEE Tin Lap, LUK Chun Shui Alfred
Journal nameMethods in molecular biology (Clifton, N.J.)
Book titleTiling Arrays: Methods and Protocols
Series TitleMethods in Molecular Biology
Year2013
Month8
Volume Number1067
PublisherSpringer
Pages225 - 233
ISBN978-1-62703-606-1
eISBN978-1-62703-607-8
ISSN1064-3745
LanguagesEnglish-United Kingdom

Last updated on 2020-24-11 at 01:20