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MEME Suite

Provides a unified portal for online discovery and analysis of sequence motifs representing features such as DNA binding sites and protein interaction domains. The popular MEME motif discovery algorithm is now complemented by the GLAM2 algorithm which allows discovery of motifs containing gaps. Three sequence scanning algorithms--MAST, FIMO and GLAM2SCAN--allow scanning numerous DNA and protein sequence databases for motifs discovered by MEME and GLAM2. Transcription factor motifs (including those discovered using MEME) can be compared with motifs in many popular motif databases using the motif database scanning algorithm TOMTOM. Transcription factor motifs can be further analyzed for putative function by association with Gene Ontology (GO) terms using the motif-GO term association tool GOMO. MEME output now contains sequence LOGOS for each discovered motif, as well as buttons to allow motifs to be conveniently submitted to the sequence and motif database scanning algorithms (MAST, FIMO and TOMTOM), or to GOMO, for further analysis. GLAM2 output similarly contains buttons for further analysis using GLAM2SCAN and for rerunning GLAM2 with different parameters.

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1 user review

1 user review

Ka-Chun Wong's avatar image

Ka-Chun Wong

The MEME suite for motif discovery and search is the most popular software for motif discovery. Its pattern recognition ability is one of the best tools I have ever seen. I highly recommend the suite. To be fair, I would also like to note the slightly high computational complexity exist in some of the programs (e.g. long running time). The users need to be aware of it.

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MEME Suite classification

MEME Suite specifications

Interface:
Web user interface
Computer skills:
Basic
Stability:
Stable
Restrictions to use:
None
Version:
4.10.1
Maintained:
Yes

MEME Suite support

Maintainer

  • Timothy L. Bailey <>

Credits

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Publications

Institution(s)

Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia

Link to literature

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