Description of CisFinder
CisFinder is a tool for finding over-representing short DNA motifs (e.g., transcription factor
binding motifs) and estimates the Position Frequency Matrix (PFM) directly from word counts.
It is designed for the analysis of ChIP-chip and ChIP-seq data and can process long input files
(50 Mb). Identification and clustering of motifs takes 8 sec per 1 Mb. Other features:
uses False discovery rate (FDR) and control sequences, finds motifs based on PFM.
Do your own data analysis
Sign in to get a password (no restriction)
If you log in as "guest" you have full functionality in one session.
If you register, you can keep your profile, uploaded data, and generated results.
Sharov, A.A. and
Ko, M.S.H. (2009). Exhaustive search for over-represented DNA sequence motifs with CisFinder. DNA Research, doi: 10.1093/dnares/dsp014.
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