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chriscole's chip-seq [5 articles]

Recent papers added to chriscole's library classified by the tag chip-seq. You can also see everyone's chip-seq.

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	Genome-Wide Mapping of in Vivo Protein-DNA Interactions Science, Vol. 316 (June 2007), pp. 1497-1502. by Richard M. Myers, Ali Mortazavi, Barbara Wold, David S. Johnson posted to protein interaction dna chip-seq 454 by chriscole on 2009-11-13 16:21:11 Abstract Copy My Attachments My Copy Abstract In vivo protein-DNA interactions connect each transcription factor with its direct targets to form a gene network scaffold. To map these protein-DNA interactions comprehensively across entire mammalian genomes, we developed a large-scale chromatin immunoprecipitation assay (ChIPSeq) based on direct ultrahigh-throughput DNA sequencing. This sequence census method was then used to map in vivo binding of the neuron-restrictive silencer factor (NRSF; also known as REST, for repressor element-1 silencing transcription factor) to 1946 locations in the human genome. The data display sharp ...
	FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology Bioinformatics, Vol. 24 (August 2008), pp. 1729-1730. by Steven J. M. Jones, Anthony P. Fejes, Mikhail Bilenky, Matthew Bainbridge, Gordon Robertson, Richard Varhol posted to solexa software chip-seq analysis by chriscole on 2009-11-13 16:21:10 Abstract Copy My Attachments My Copy Abstract Summary: Next-generation sequencing can provide insight into protein-DNA association events on a genome-wide scale, and is being applied in an increasing number of applications in genomics and meta-genomics research. However, few software applications are available for interpreting these experiments. We present here an efficient application for use with chromatin-immunoprecipitation (ChIP-Seq) experimental data that includes novel functionality for identifying areas of gene enrichment and transcription factor binding site locations, as well as for estimating DNA fragment size distributions in enriched areas. The ...
	Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing Nat Meth, Vol. 4 (2007), pp. 651-657. by Martin Hirst, Thomas Zeng, Bridget Bernier, et al.Michael Snyder, Yongjun Zhao, Allen Delaney, Matthew Bainbridge, Steven Jones, Gordon Robertson, Nina Thiessen, Richard Varhol, Misha Bilenky, Obi L. Griffith, Ghia Euskirchen, Marco Marra, Ann He posted to solexa chip-seq by chriscole on 2009-11-13 16:21:09 Copy My Attachments My Copy
	Design and analysis of ChIP-seq experiments for DNA-binding proteins Nat Biotech, Vol. 26 (December 2008), pp. 1351-1359. by Peter J. Park, Michael Y. Tolstorukov, Peter V. Kharchenko posted to sequencing chip-seq by chriscole on 2009-11-13 16:21:08 Copy My Attachments My Copy
	PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls Nat Biotech, Vol. 27 (January 2009), pp. 66-75. by Mark B. Gerstein, Nicholas Carriero, Michael Snyder, et al.Joel Rozowsky, Raymond K. Auerbach, Robert Bjornson, Ghia Euskirchen, Zhengdong D. Zhang, Theodore Gibson posted to stat1 solexa sequencing polii human chip-seq by chriscole on 2009-11-13 16:21:08 Copy My Attachments My Copy

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