CID-miRNA: a web server for prediction of novel miRNA precursors in human genome.
microRNAs (miRNA) are a class of non-protein coding functional RNAs that are thought to regulate expression of target genes by direct interaction with mRNAs. miRNAs have been identified through both experimental and computational methods in a variety of eukaryotic organisms. Though these approaches have been partially successful, there is a need to develop more tools for detection of these RNAs as they are also thought to be present in abundance in many genomes. In this report we describe a tool and a web server, named CID-miRNA, for identification of miRNA precursors in a given DNA sequence, utilising secondary structure-based filtering systems and an algorithm based on stochastic context free grammar trained on human miRNAs. CID-miRNA analyses a given sequence using a web interface, for presence of putative miRNA precursors and the generated output lists all the potential regions that can form miRNA-like structures. It can also scan large genomic sequences for the presence of potential miRNA precursors in its stand-alone form. The web server can be accessed at http://mirna.jnu.ac.in/cidmirna/.
Tyagi
Sonika
S
Centre for Computational Biology & Bioinformatics, School of Information Technology, Jawaharlal Nehru University, New Mehrauli Road, New Delhi 110067, India.
Vaz
Candida
C
Gupta
Vipin
V
Bhatia
Rohit
R
Maheshwari
Sachin
S
Srinivasan
Ashwin
A
Bhattacharya
Alok
A
D001483:Base Sequence; D019295:Computational Biology / Q000295:instrumentation / Q000379:methods*; D015894:Genome, Human; D006801:Humans; D020407:Internet; D035683:MicroRNAs / Q000235:genetics*; D008969:Molecular Sequence Data; D017423:Sequence Analysis, RNA / Q000295:instrumentation / Q000379:methods*; D012984:Software
D035683:MicroRNAs