The MEME suite is a freely available collection of tools that can be used to discover motifs in a set of DNA or protein sequences. MEME stands for Multiple Expectation Maximum for Motif Elicitation. With MEME suite you can: discover motifs in DNA or protein sequences; search sequence databases using a given motifs; compare a given motif to all motifs that are in a motif database; and associate motifs with the Gene Ontology terms that are listed for a motifs putative target genes.

You will learn:

  • about the different components of the MEME suite, and how they interconnect
  • how to discover motifs within DNA or protein sequences
  • to align motifs and search for motifs
  • to use the MEME suite to search for motif similarity and GO association
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Motif analysis tools. You might find the other tutorials in the group interesting:

Melina II: A Web-Based Tool for Promoter Analysis

Gibbs Motif Sampler: A motif finder and analysis tool

MDscan: Motif Discovery scan for nucleotide and protein motifs

Consensus: A pattern and motif recognition program

MEME Suite GLAM2 Algorithm: Part of a motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences.

MEME Algorithm: Multiple Expectation Maximum for Motif Elicitation

World Tour of Genomics Resources 2: Great tools from around the world

MEME Suite TOMTOM and GOMO algorithms: Motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences that you provide


This tutorial is a part of the tutorial group Motifs and Domains. You might find the other tutorials in the group interesting:

Melina II: A Web-Based Tool for Promoter Analysis

MINT: Molecular Interaction Database

Gibbs Motif Sampler: A motif finder and analysis tool

MEME Suite Sequence Annotation Tools: MEME suite motif finding and annotating tools

MDscan: Motif Discovery scan for nucleotide and protein motifs

PROSITE: Database of protein domains, families and functional sites

MEME Suite GLAM2 Algorithm: Part of a motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences.

MEME Algorithm: Multiple Expectation Maximum for Motif Elicitation

MEME Suite TOMTOM and GOMO algorithms: Motif discovery tool that can detect conserved motifs in a set of DNA or protein sequences that you provide

SMART: Protein domain annotation and analysis of domain architectures

InterPro: A comprehensive protein signature resource

CATEGORIES

Algorithms and Analysis : This category contains various tools that may help perform analysis of different genomics data types. This may include sequence alignment, large-scale or complex queries, motif finding, or comparative assessments.

BLOG POSTS

Video Tip of the Week: Ambiscript Mosaic for visualizing nucleotide motifs: One of the topics I keep an eye on is visualization of various types of genomics data, and I'm always interested in new tools for graphical representations. In the past some of our most popular posts h...

What's the Answer? (promoter identification): BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of thecommunity and find it very useful. Often questions and answers arise at BioStar that are germane to...

Tip of the Week: Melina II for promoter analysis: One of the most frequently-asked questions we get when we are out doing workshops is: how do I find motifs in promoters, and what can I do with them to find more information? Just last Friday we were ...

Tip of the Week: MEME Suite of Motif Discovery Tools: In this week's tip I'm going to introduce you to a suite of motif discovery tools, and show you (briefly) how to use one of the tools. The MEME suite is a comprehensive collection of tools for analysi...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Athwal K Rajbir et al., CENP-A nucleosomes localize to transcription factor hotspots and subtelomeric sites in human cancer cells. Epigenetics Chromatin (2015) doi:10.1186/1756-8935-8-2

Sun Hua et al., Genome-wide identification and characterization of the bHLH gene family in tomato. BMC Genomics (2015) doi:10.1186/s12864-014-1209-2

Qiao Xin et al., Genome-wide identification and comparative analysis of the heat shock transcription factor family in Chinese white pear ( Pyrus bretschneideri ) and five other Rosaceae species. BMC Plant Biology (2015) doi:10.1186/s12870-014-0401-5

Ma Jing et al., Genome-wide analysis of Dof family transcription factors and their responses to abiotic stresses in Chinese cabbage. BMC Genomics (2015) doi:10.1186/s12864-015-1242-9

Jakobsen S Janus et al., Amplification of pico-scale DNA mediated by bacterial carrier DNA for small-cell-number transcription factor ChIP-seq. BMC Genomics (2015) doi:10.1186/s12864-014-1195-4