TBI-Preprint 05-10-002
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Titel:
miRNAMap: Genomic Maps of MicroRNA Genes and Their Target Genes in Mammalian Genomes
Author(s):
Wei-Che Hsu, Hsien-Da Huang, Sheng-Da Hsu, Li-Zen Lin, Ann-Ping Tsou, Ching-Ping Tseng, Peter F. Stadler, Stefan Washietl, Ivo L. Hofacker
To appear in
Nucleic Acids Res. (2005)
Abstract:
Recent work has demonstrated that microRNAs (miRNAs) are involved in
critical biological processes by suppressing the translation of coding
genes. This work develops an integrated database, miRNAMap, to store the
known miRNA genes, the putative miRNA genes, the known miRNA targets and
the putative miRNA targets. The known miRNA genes in four mammalian genomes
such as human, mouse, rat and dog are obtained from miRBase, and
experimentally validated miRNA targets are identified in a survey of the
literature. Putative miRNA precursors were identified by RNAz, which is a
non-coding RNA prediction tool based on comparative sequence analysis. The
mature miRNA of the putative miRNA genes is accurately determined using a
machine learning approach, mmiRNA. Then, miRanda was applied to predict the
miRNA targets within the conserved regions in 3#-UTR of the genes in the
four mammalian genomes. The miRNAMap also provides the expression profiles
of the known miRNAs, cross-species comparisons, gene annotations and
cross-links to other biological databases. Both textual and graphical web
interface are provided to facilitate the retrieval of data from the
miRNAMap. The database is freely available at
http://mirnamap.mbc.nctu.edu.tw.
Keywords:
microRNA, database
Alternative Numbers:
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Last modified: 2005-10-31 01:50:16 ivo