CID-miRNA: A web server for prediction of novel miRNA precursors in human genome
- Centre for Computational Biology and Bioinformatics, School of Information Technology, Jawaharlal Nehru University, New Mehrauli Road, New Delhi 110067 (India)
- Department of Computer Sciences, Netaji Subhash Institute of Technology, New Delhi (India)
- Department of Computer Sciences, Indian Institute of Technology, New Delhi (India)
- IBM Research Lab, Indian Institute of Technology, New Delhi (India)
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/)
- OSTI ID:
- 21143807
- Journal Information:
- Biochemical and Biophysical Research Communications, Vol. 372, Issue 4; Other Information: DOI: 10.1016/j.bbrc.2008.05.134; PII: S0006-291X(08)01055-3; Copyright (c) 2008 Elsevier Science B.V., Amsterdam, The Netherlands, All rights reserved; Country of input: International Atomic Energy Agency (IAEA); ISSN 0006-291X
- Country of Publication:
- United States
- Language:
- English
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