MoTeX: A word-based HPC tool for MoTif extraction

Solon P. Pissis, Alexandros Stamatakis, Pavlos Pavlidis

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review

Abstract

Motivation: Identifying repeated factors that occur in a string of letters or common factors that occur in a set of strings represents an important task in computer science and biology. Such patterns are called motifs, and the process of identifying them is called motif extraction. In biology, motifs may correspond to functional elements in DNA, RNA, or protein molecules. Motifs may also correspond to whole loci whose sequences are highly similar because of recent duplication (e.g., transposable elements or recently duplicated genes). A DNA motif is a nucleic acid sequence that has a specific biological function, for instance encoding the DNA binding sites for a regulatory protein (transcription factor).

Original languageEnglish
Title of host publication2013 ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics, ACM-BCB 2013
Pages13-22
Number of pages10
DOIs
Publication statusPublished - 28 Nov 2013
Externally publishedYes
Event2013 4th ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics, ACM-BCB 2013 - Wshington, DC, United States
Duration: 22 Sep 201325 Sep 2013

Publication series

Name2013 ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics, ACM-BCB 2013

Conference

Conference2013 4th ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics, ACM-BCB 2013
CountryUnited States
CityWshington, DC
Period22/09/1325/09/13

Keywords

  • DNA motif
  • High-performance computing
  • Motif extraction
  • Text mining

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