miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes

@article{citeulike:1991370, abstract = {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/. 10.1093/nar/gkm1012}, author = {Hsu, Sheng-Da and Chu, Chia-Huei and Tsou, Ann-Ping and Chen, Shu-Jen and Chen, Hua-Chien and Hsu, Paul W. and Wong, Yung-Hao and Chen, Yi-Hsuan and Chen, Gian-Hung and Huang, Hsien-Da }, citeulike-article-id = {1991370}, doi = {10.1093/nar/gkm1012}, journal = {Nucl. Acids Res.}, keywords = {database, microrna}, month = {November}, pages = {gkm1012+}, posted-at = {2008-03-04 16:22:05}, priority = {2}, title = {miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes}, url = {http://dx.doi.org/10.1093/nar/gkm1012}, year = {2007} }

TY - JOUR ID - citeulike:1991370 L3 - citeulike-article-id:1991370 TI - miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes JF - Nucl. Acids Res. SP - gkm1012 N2 - 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/. 10.1093/nar/gkm1012 KW - database KW - microrna AU - Hsu, Sheng-Da AU - Chu, Chia-Huei AU - Tsou, Ann-Ping AU - Chen, Shu-Jen AU - Chen, Hua-Chien AU - Hsu, Paul AU - Wong, Yung-Hao AU - Chen, Yi-Hsuan AU - Chen, Gian-Hung AU - Huang, Hsien-Da PY - 2007/11/19/ UR - http://dx.doi.org/10.1093/nar/gkm1012 ER -