PMSearch (Poly Matrix Search) is a tool that utilizes Position Weight Matrices to search for putative Transcription Factor Binding Sites. PMSearch takes Position Frequency Matrices (PFMs) and DNA sequences to initiate a prediction task. The user may upload motifs/matrices (Position Frequency Matrices, PFM or Position Weight Matrices, PWM))or retrieve PFMs from our local dataset as input. We currently have 507 PFMs downloaded from Transfac Public Database 7.0 and JASPAR. Besides PFMs, the user may add multiple sequences in FASTA or Genbank format. PMSearch outputs a plot, a table of location, score and motif of each high scoring site and clusters of these sites.
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Bioinformation. 2006 Jun 15;1(5):156-7.
A web server for transcription factor binding site prediction.
Su G, Mao B, Wang J.