Computational characterization and identification of core promoters of MicroRNA genes in C. elegans, H. sapiens and A. thaliana

Xuefeng Zhou, Jianhua Ruan, Guandong Wang, Weixiong Zhang

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

1 Scopus citations

Abstract

MicroRNAs are short, noncoding RNAs that play important roles in post-transcriptional regulation. Although many functions of microRNAs in plants and animals have been revealed in recent years, the transcriptional mechanism of microRNA genes is not well understood. To elucidate the transcriptional regulation of microRNA genes, we study and characterize, in a genome scale, the promoters of intergenic microRNA genes in Caenorhabditis elegans, Homo sapiens and Arabidopsis thaliana. Specifically, we show that the known microRNA genes in these species have the same type of promoters as the protein-coding genes. To further characterize the promoters of miRNA genes, we develop a miRNA core promoter prediction method, called common query voting (CoVote). We applied this new method to identify putative core promoters of most known microRNA genes in the three model species of choice.

Original languageEnglish (US)
Title of host publicationSystems Biology and Regulatory Genomics - Joint Annual RECOMB 2005 Satellite Workshops on Systems Biology and on Regulatory Genomics, Revised Selected Papers
Pages235-248
Number of pages14
StatePublished - Aug 3 2007
Externally publishedYes
EventJoint Annual RECOMB 2005 Satellite Workshops on Systems Biology and on Regulatory Genomics - San Diego, CA, United States
Duration: Dec 2 2005Dec 4 2005

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume4023 LNBI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

ConferenceJoint Annual RECOMB 2005 Satellite Workshops on Systems Biology and on Regulatory Genomics
CountryUnited States
CitySan Diego, CA
Period12/2/0512/4/05

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)

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