miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes

被引：209

作者：

Hsu, Sheng-Da ^{[1
]}

Chu, Chia-Huei ^{[1
]}

Tsou, Ann-Ping ^{[2
]}

Chen, Shu-Jen ^{[3
]}

Chen, Hua-Chien ^{[3
]}

Hsu, Paul Wei-Che ^{[1
]}

Wong, Yung-Hao ^{[1
]}

Chen, Yi-Hsuan ^{[3
]}

Chen, Gian-Hung ^{[3
]}

Huang, Hsien-Da ^{[1
,4
,5
]}

机构：

[1] Natl Chiao Tung Univ, Inst Bioinformat, Dept Biol Sci & Technol, Hsinchu 300, Taiwan

[2] Natl Yang Ming Univ, Inst Biotechnol Med, Taipei 112, Taiwan

[3] Chang Gung Univ, Mol Med Res Ctr, Tao Yuan 333, Taiwan

[4] Natl Chiao Tung Univ, Dept Biol Sci & Technol, Hsinchu 300, Taiwan

[5] Natl Chiao Tung Univ, Core Facil Struct Bioinformat, Hsinchu 300, Taiwan

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

关键词：

D O I：

10.1093/nar/gkm1012

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

MicroRNAs (miRNAs) are small non-coding RNA molecules that can negatively regulate gene expression and thus control numerous cellular mechanisms. This work develops a resource, miRNAMap 2.0, for collecting experimentally verified microRNAs and experimentally verified miRNA target genes in human, mouse, rat and other metazoan genomes. Three computational tools, miRanda, RNAhybrid and TargetScan, were employed to identify miRNA targets in 3-UTR of genes as well as the known miRNA targets. Various criteria for filtering the putative miRNA targets are applied to reduce the false positive prediction rate of miRNA target sites. Additionally, miRNA expression profiles can provide valuable clues on the characteristics of miRNAs, including tissue specificity and differential expression in cancer/normal cell. Therefore, quantitative polymerase chain reaction experiments were performed to monitor the expression profiles of 224 human miRNAs in 18 major normal tissues in human. The negative correlation between the miRNA expression profile and the expression profiles of its target genes typically helps to elucidate the regulatory functions of the miRNA. The interface is also redesigned and enhanced. The miRNAMap 2.0 is now available at http://miRNAMap.mbc.nctu.edu.tw/.

引用

页码：D165 / D169

页数：5

共 19 条

[1] Gene expression omnibus: Microarray data storage, submission, retrieval, and analysis [J].