A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data

@inproceedings{Lun2009ABD,
  title={A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data},
  author={Desmond S. Lun and Ashley Mauriah Sherrid and Brian Weiner and David R. Sherman and James E. Galagan},
  booktitle={Genome Biology},
  year={2009}
}
We present CSDeconv, a computational method that determines locations of transcription factor binding from ChIP-seq data. CSDeconv differs from prior methods in that it uses a blind deconvolution approach that allows closely-spaced binding sites to be called accurately. We apply CSDeconv to novel ChIP-seq data for DosR binding in Mycobacterium tuberculosis and to existing data for GABP in humans and show that it can discriminate binding sites separated by as few as 40 bp. 
BETA

Tables and Topics from this paper.

Explore Further: Topics Discussed in This Paper

Citations

Publications citing this paper.
SHOWING 1-10 OF 51 CITATIONS, ESTIMATED 59% COVERAGE

Transcription Factor Binding Site Mapping Using ChIP-Seq.

  • Microbiology spectrum
  • 2014
VIEW 3 EXCERPTS
CITES METHODS
HIGHLY INFLUENCED

Processing and analyzing ChIP-seq data: from short reads to regulatory interactions.

  • Briefings in functional genomics
  • 2010
VIEW 4 EXCERPTS
CITES BACKGROUND
HIGHLY INFLUENCED

FILTER CITATIONS BY YEAR

2010
2019

CITATION STATISTICS

  • 8 Highly Influenced Citations

  • Averaged 2 Citations per year over the last 3 years

References

Publications referenced by this paper.
SHOWING 1-10 OF 35 REFERENCES

Model-based Analysis of ChIP-Seq (MACS)

  • Genome Biology
  • 2008
VIEW 4 EXCERPTS
HIGHLY INFLUENTIAL

An integrated software system for analyzing ChIP-chip and ChIPseq data

H Ji, H Jiang, +3 authors WH Wong
  • Nat Biotechnol
  • 2008
VIEW 1 EXCERPT

Similar Papers

Loading similar papers…