ChIPMunk

ChIPMunk is a software tool that constructs refined motifs for nucleotide sequences specifically interacting with 39 transcriptional regulatory proteins of Drosophila melanogaster. The motifs are constructed using experimental data from DNAse footprinting, SELEX, ChIP-chip, and B1H-system. The collection of motifs can be used to refine the immediate binding sites of transcription factors in DNA nucleotide sequences. The collection of motifs and the results of the estimation of motif quality are available.

Topic

ChIP-seq;Sequence sites, features and motifs

Detail

  • Operation: Sequence motif discovery;Sequence motif comparison

  • Software interface: Web user interface

  • Language: Java

  • License: -

  • Cost: -

  • Version name: -

  • Credit: -

  • Input: -

  • Output: -

  • Contact: ivan.kulakovskiy@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • [Integration of data obtained by different experimental methods to determine the motifs in DNA sequences recognized by transcription-regulating factors].
  • Kulakovskiĭ IV, Makeev VIu. [Integration of data obtained by different experimental methods to determine the motifs in DNA sequences recognized by transcription-regulating factors]. Biofizika. 2009 Nov-Dec;54(6):965-74. Russian. PMID: 20067172.
  • https://doi.org/keep-4373
  • PMID: 20067172
  • PMC: -

Download and documentation

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