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2024-03-18Join IBIS! New TF binding specificity challenge open for registration https://ibis.autosome.org   [showhide]

IBIS is an open challenge in Inferring Binding Specificities of human transcription factors from multiple experiment types with bioinformatics & machine learning. Have a look at our website, participate in our discussion forums, or contact us by email:


PWMTools is a Web interface for Position Weight Matrix (PWM) model generation and evaluation.

PWMs have become a popular method for representing patterns in biological sequences, and they are used to extensively study protein-DNA binding specificity, in particular for transcription factor binding site (TFBS) identification.

PWMTools includes the following tools:

  • PWMTrain which is a Web-based software pipeline used to derive TFBS models from DNA sequences such as HT-SELEX and SMiLE-seq
  • PWMEval which is a Web tool to evaluate PWM models based on ChIP-seq data
  • PWMScore which is a Web tool to compute the binding occupancy score of a set of genomic sequences, given a PWM model
  • PWMScan which is a Web tool to scan entire genomes of common model organisms with a PWM


Last update April 2021