論文

査読有り
2010年1月

Modeling tissue-specific structural patterns in human and mouse promoters

NUCLEIC ACIDS RESEARCH
  • Alexis Vandenbon
  • ,
  • Kenta Nakai

38
1
開始ページ
17
終了ページ
25
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1093/nar/gkp866
出版者・発行元
OXFORD UNIV PRESS

Sets of genes expressed in the same tissue are believed to be under the regulation of a similar set of transcription factors, and can thus be assumed to contain similar structural patterns in their regulatory regions. Here we present a study of the structural patterns in promoters of genes expressed specifically in 26 human and 34 mouse tissues. For each tissue we constructed promoter structure models, taking into account presences of motifs, their positioning to the transcription start site, and pairwise positioning of motifs. We found that 35 out of 60 models (58%) were able to distinguish positive test promoter sequences from control promoter sequences with statistical significance. Models with high performance include those for liver, skeletal muscle, kidney and tongue. Many of the important structural patterns in these models involve transcription factors of known importance in the tissues in question and structural patterns tend to be conserved between human and mouse. In addition to that, promoter models for related tissues tend to have high inter-tissue performance, indicating that their promoters share common structural patterns. Together, these results illustrate the validity of our models, but also indicate that the promoter structures for some tissues are easier to model than those of others.

リンク情報
DOI
https://doi.org/10.1093/nar/gkp866
PubMed
https://www.ncbi.nlm.nih.gov/pubmed/19850720
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000273229100008&DestApp=WOS_CPL
ID情報
  • DOI : 10.1093/nar/gkp866
  • ISSN : 0305-1048
  • PubMed ID : 19850720
  • Web of Science ID : WOS:000273229100008

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