Promoter modeling: the case study of mammalian histone promoters

被引:9
作者
Chowdhary, R
Ali, RA
Albig, W
Doenecke, D
Bajic, VB
机构
[1] Inst Infocomm Res, Knowledge Extract Lab, Singapore 119613, Singapore
[2] Natl Univ Singapore, Dept Stat & Appl Probabil, Singapore 117543, Singapore
[3] Univ Gottingen, Dept Mol Biol Biochem & Mol Cell Biol, D-37073 Gottingen, Germany
关键词
D O I
10.1093/bioinformatics/bti387
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Motivation: Histone proteins play important roles in chromosomal functions. They are significantly evolutionarily conserved across species, which suggests similarity in their transcription regulation. The abundance of experimental data on histone promoters provides an excellent background for the evaluation of computational methods. Our study addresses the issue of how well computational analysis can contribute to unveiling the biologically relevant content of promoter regions for a large number of mammalian histone genes taken across several species, and suggests the consensus promoter models of different histone groups. Results: This is the first study to unveil the detailed promoter structures of all five mammalian histone groups and their subgroups. This is also the most comprehensive computational analysis of histone promoters performed to date. The most exciting fact is that the results correlate very well with the biologically known facts and experimental data. Our analysis convincingly demonstrates that computational approach can significantly contribute to elucidation of promoter content (identification of biologically relevant signals) complementing tedious wet-lab experiments. We believe that this type of analysis can be easily applied to other functional gene classes, thus providing a general framework for modelling promoter groups. These results also provide the basis to hunt for genes co-regulated with histone genes across mammalian genomes.
引用
收藏
页码:2623 / 2628
页数:6
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