CID-miRNA: A web server for prediction of novel miRNA precursors in human genome

Journal Article · Fri Aug 08 04:00:00 EDT 2008 · Biochemical and Biophysical Research Communications

DOI:https://doi.org/10.1016/j.bbrc.2008.05.134· OSTI ID:21143807

Tyagi, Sonika; Vaz, Candida ^[1]; Gupta, Vipin; Bhatia, Rohit ^[2]; Maheshwari, Sachin ^[3]; Srinivasan, Ashwin ^[4]; Bhattacharya, Alok ^[1]

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1. Centre for Computational Biology and Bioinformatics, School of Information Technology, Jawaharlal Nehru University, New Mehrauli Road, New Delhi 110067 (India)
2. Department of Computer Sciences, Netaji Subhash Institute of Technology, New Delhi (India)
3. Department of Computer Sciences, Indian Institute of Technology, New Delhi (India)
4. 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, Journal Name: Biochemical and Biophysical Research Communications Journal Issue: 4 Vol. 372; ISSN BBRCA9; ISSN 0006-291X
• Country of Publication: United States
• Language: English

Related Subjects

60 APPLIED LIFE SCIENCES
ALGORITHMS
DNA SEQUENCING
FORECASTING
PROTEINS
RNA
STOCHASTIC PROCESSES