program for microRNA (miRNA) target prediction
Posted 14 March 2005 - 05:53 PM
I am trying to identify a micro RNA that targets our gene of interest. I'm finding it hard to determine whether the micros that i have cloned are specific to our region due to a lack of sequence alignment programmes that allow for the mismatches and gaps that occur between micro RNAs and their targets.
Basically....what is a good programme to align micro RNAs with potential targets?
Posted 14 March 2005 - 06:07 PM
miRanda is an algorithm for finding genomic targets for microRNAs. This algorithm has been written in C and is available as an open-source method under the GPL. MiRanda was developed at the Computational Biology Center of Memorial Sloan-Kettering Cancer Center.
The windows version: http://cbio.mskcc.or...3/src/jmiranda/
The Mac version: http://cbio.mskcc.or...3/src/binaries/
The Windows Cygwin version http://cbio.mskcc.or...3/src/binaries/
The latest command line (linux or unix) version http://www.microrna....getDownloads.do
Posted 25 March 2005 - 04:41 AM
Could anyone tell me how to install and use miRanda software?
I am using Windows XP computer, and had installed J2SE 5.0. But when opening miRanda v1.0b, the program says error, although MiRanda Java Interface v1.0 window opens. Further I have no idea how to use it. Does this software already have miRNA library, or should I make it like mouse miRNAs, human RNAs...?
Thank you for your help.
Posted 25 March 2005 - 11:39 AM
You have to download miRNA library from http://www.sanger.ac...mirna/browse.pl
Posted 25 September 2012 - 10:02 PM
Posted 05 June 2013 - 10:06 PM
This is is continuation with the miRNA target perdiction. I am trying to find out human miRNA target on a virus gene of interest. Can anyone suggest some tool/software to do the required..
Thanks in advance