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A motif finder and analysis tool

Tutorial and training materials by OpenHelix

Learn to use Gibbs Motif Sampler, a freely available web resource for finding motifs on DNA or protein sequences. The Gibbs Motif Sampler is a compendium of several analysis tools all developed from a basic algorithm called Gibbs sampling method. With this tool you will be able to easily identify motifs and conserved regions in DNA or protein sequences.
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You'll learn:

  • how to produce a file containing a set of sequences in FASTA format
  • how to upload sequences to one of the Gibbs Motif Sampler tools for analysis
  • how to do a basic DNA motif search


Related tutorials

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

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Recent BioMed Central research articles citing this resource

Wang Jiangxin et al., RNA-seq based identification and mutant validation of gene targets related to ethanol resistance in cyanobacterial Synechocystis sp. PCC 6803. Biotechnology for Biofuels (2012) doi:10.1186/1754-6834-5-89

Ren Cong et al., Pleiotropic functions of catabolite control protein CcpA in Butanol-producing Clostridium acetobutylicum. BMC Genomics (2012) doi:10.1186/1471-2164-13-349

Pandey Rajesh et al., Heat shock factor binding in Alu repeats expands its involvement in stress through an antisense mechanism. Genome Biology (2011) doi:10.1186/gb-2011-12-11-r117

Harris Y Elena et al., Chromatin-driven de novo discovery of DNA binding motifs in the human malaria parasite. BMC Genomics (2011) doi:10.1186/1471-2164-12-601

Regad Leslie et al., Mining protein loops using a structural alphabet and statistical exceptionality. BMC Bioinformatics (2010) doi:10.1186/1471-2105-11-75

More about the resource:

The Gibbs Motif Sampler tools were initially developed and continue to grow at the Biometrics Laboratory of the Wadsworth Center, the scientific research arm of the New York State Department of Health. The web interface can be used at this site and mirror sites, or the source code and other formats can be found on a link right on the homepage.


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The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.

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