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An algorithm particularly suited for the discovery of small and degenerate linear motifs. MotifHound performs an exact and exhaustive enumeration of all motifs present in proteins of interest, including all of their degenerate forms, and scores the overrepresentation of each motif based on its occurrence in proteins of interest relative to a background (e.g., proteome) using the hypergeometric distribution.

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MotifHound classification

MotifHound specifications

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MotifHound support


  • Stephen Michnick <>


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Département de Biochimie and Centre Robert-Cedergren, Bio-Informatique et Génomique, Université de Montréal, Montreal, QC, Canada

Funding source(s)

Supported by the "Fonds québécois de la recherche sur la nature et les technologies" postdoctoral fellowships program for financial support; the Human Frontier Science Project postdoctoral fellowships program and the Weizmann Institute of Science for financial support; the Recanati Career Development Chair of Cancer Research; and by Canadian Institutes of Health Research grants MOPGMX-152556 and MOP-GMX-231013.

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