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- Title
Annotation of gene promoters by integrative data-mining of ChIP-seq Pol-II enrichment data.
- Authors
Gupta, Ravi; Wikramasinghe, Priyankara; Bhattacharyya, Anirban; Perez, Francisco A; Pal, Sharmistha; Davuluri, Ramana V
- Abstract
Use of alternative gene promoters that drive widespread cell-type, tissue-type or developmental gene regulation in mammalian genomes is a common phenomenon. Chromatin immunoprecipitation methods coupled with DNA microarray (ChIP-chip) or massive parallel sequencing (ChIP-seq) are enabling genome-wide identification of active promoters in different cellular conditions using antibodies against Pol-II. However, these methods produce enrichment not only near the gene promoters but also inside the genes and other genomic regions due to the non-specificity of the antibodies used in ChIP. Further, the use of these methods is limited by their high cost and strong dependence on cellular type and context.
- Publication
BMC bioinformatics, 2010, Vol 11 Suppl 1, pS65
- ISSN
1471-2105
- Publication type
Journal Article
- DOI
10.1186/1471-2105-11-S1-S65