Genome-wide search for coaxial helical stacking motifs

Kevin Byron, Jason Wang, Dongrong Wen

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Motif finding in DNA, RNA and proteins plays an important role in life science research. In this paper, we present a computational approach to searching for RNA tertiary motifs in genomic sequences. Specifically, we describe a method, named CSminer, and show, as a case study, the application of CSminer to genome-wide search for coaxial helical stackings in RNA 3-way junctions. A coaxial helical stacking motif occurs in an RNA 3-way junction where two separate helical elements form a pseudocontiguous helix and provide thermodynamic stability to the RNA molecule as a whole. Experimental results demonstrate the effectiveness of our approach.

Original languageEnglish (US)
Title of host publicationIEEE 12th International Conference on BioInformatics and BioEngineering, BIBE 2012
Pages260-265
Number of pages6
DOIs
StatePublished - Dec 1 2012
Event12th IEEE International Conference on BioInformatics and BioEngineering, BIBE 2012 - Larnaca, Cyprus
Duration: Nov 11 2012Nov 13 2012

Other

Other12th IEEE International Conference on BioInformatics and BioEngineering, BIBE 2012
Country/TerritoryCyprus
CityLarnaca
Period11/11/1211/13/12

All Science Journal Classification (ASJC) codes

  • Bioengineering
  • Biomedical Engineering

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