MEME specifications

Information


Unique identifier OMICS_08103
Name MEME
Alternative name Multiple Em for Motif Elicitation
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/Multiple_EM_for_Motif_Elicitation

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Maintainer


  • person_outline FIMO Team <>

Additional information


A CUDA implementation is also available here : https://doi.org/10.1016/j.patrec.2009.10.009

Information


Unique identifier OMICS_08103
Name MEME
Alternative name Multiple Em for Motif Elicitation
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes
Wikipedia https://en.wikipedia.org/wiki/Multiple_EM_for_Motif_Elicitation

Maintainer


  • person_outline FIMO Team <>

Additional information


A CUDA implementation is also available here : https://doi.org/10.1016/j.patrec.2009.10.009

MEME article

MEME citations

 (34)
2017
PMCID: 5751320

[…] arf and bp1 domains were analyzed using smart (http://smart.embl-heidelberg.de/) and the multiple expectation maximization for motif elicitation (meme) web server (http://meme.nbcr.net/meme/cgi-bin/meme.cgi). optimum motif width was set from 6 to 200, and the maximum number of motifs was set to 15. the chromosomal location data of caarf family genes were obtained from pepper genomics database. […]

2017
PMCID: 5666717

[…] by software mega 4.0 (available online: http://www.megasoftware.net/mega4/)with neighbor-joining (nj) method [37]. the conserved motifs (recurring, fixed-length patterns) were discovered by the multiple em for motif elicitation tool (meme, available online: http://meme-suite.org/tools/meme) [44]. the number and the widths of conserved motifs were set to 25 and 5–20 amino acids, […]

2017
PMCID: 5618654

[…] and smart. the conserved motifs in the rice phd proteins were predicted by using the on-line meme procedure (multiple em for motif elicitation, http://meme-suite.org/tools/meme) by using the following parameters: 5 ≤ optimum motif width ≤ 200; the number of motifs =20; zero or one occurrence per sequence [57]., the expression data of the rice phd family genes […]

2017
PMCID: 5437156

[…] et al., 2003). we used a similar approach to identify homologous conserved motifs in nbs domains of chickpea. the protein sequence of nbs domain from each nbs-lrr gene was retrieved and subjected to meme (multiple expectation maximization for motif elicitation; bailey et al., 2006) for prediction of the conserved motifs., the exon/intron structure of the chickpea nbs-lrr genes was retrieved […]

2017
PMCID: 5330122

[…] search for 20 motifs, occurrence of a single motif: 0 to 1 occurrence per sequence of a contributing motif site, motifs width range: between 6 and 50 wide - inclusive, all motifs discovered by meme were annotated by adopting interpro [71] and smart [64]. the transmembrane domain into the nac proteins was expected via the aramemnon plant membrane protein database [72]. motif information […]

MEME institution(s)
Department of Computer Science and Engineering, University of California at San Diego, La Jolla, CA, USA

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