Searching for 2D RNA geometries in bacterial genomes

Uri Laserson, Hin Hark Gan, Tamar Schlick

Research output: Contribution to conferencePaper

Abstract

A method to search for specific RNA geometries in the genomes of bacterial organisms, is discussed. The method is comprised of three steps such as motif descriptor construction, genome search and analysis of candidate sequence. After initially filtering the pool of candidates by predicting whether they adopt the correct geometry, the remaining candidates are subjected to two energetic analysis to evaluate their stability, an analysis of heat capacity curves and the generation of conformational energy landscape. The search methodology is expected to be applied in vitro selection technology as a tool for identifying novel RNA genes or RNA-based regulatory mechanisms.

Original languageEnglish (US)
Pages373-377
Number of pages5
StatePublished - Sep 29 2004
EventProceedings of the Twentieth Annual Symposium on Computational Geometry (SCG'04) - Brooklyn, NY, United States
Duration: Jun 9 2004Jun 11 2004

Other

OtherProceedings of the Twentieth Annual Symposium on Computational Geometry (SCG'04)
CountryUnited States
CityBrooklyn, NY
Period6/9/046/11/04

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ASJC Scopus subject areas

  • Theoretical Computer Science
  • Geometry and Topology
  • Computational Mathematics

Cite this

Laserson, U., Gan, H. H., & Schlick, T. (2004). Searching for 2D RNA geometries in bacterial genomes. 373-377. Paper presented at Proceedings of the Twentieth Annual Symposium on Computational Geometry (SCG'04), Brooklyn, NY, United States.