CID-miRNA: a web server for prediction of novel miRNA precursors in human genome |
| |
Authors: | Tyagi Sonika Vaz Candida Gupta Vipin Bhatia Rohit Maheshwari Sachin Srinivasan Ashwin Bhattacharya Alok |
| |
Institution: | a Centre for Computational Biology & Bioinformatics, School of Information Technology, Jawaharlal Nehru University, New Mehrauli Road, New Delhi 110067, India b Department of Computer Sciences, Netaji Subhash Institute of Technology, New Delhi, India c Department of Computer Sciences, Indian Institute of Technology, New Delhi, India d IBM Research Lab, Indian Institute of Technology, New Delhi, India e School of Life Sciences, Jawaharlal Nehru University, New Delhi, India |
| |
Abstract: | 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/. |
| |
Keywords: | microRNA SCFG RNA secondary structure miRNA web server |
本文献已被 ScienceDirect PubMed 等数据库收录! |
|