Gene-specific
siRNA selector
Small interfering RNA (siRNA)
guides sequence-specific degradation of the homologous mRNA,
thus producing "knock-down" cells. siRNA design
tool scans a target gene for candidate siRNA sequences that
satisfy user-adjustable rules.
The program evaluates:
1. siRNA FUNCTIONALITY
by using empirical rules recently developed by Dharmacon,
Amgen and University of Massachusetts.
2. siRNA SPECIFICITY by blasting each sequence
against UniGene.
In addition, non-specific scrambled controls can be designed
using "scrambled" option.
To start the program see the
LAUNCH link on the right
Update
08.01.03
Option to find candidate siRNA with maximum hybridization specificity
to the gene of interest is now available.
01.20.04 Option to get negative control for siRNA of
interest has been added.
05.20.04 Empirical rules developed by Dharmacon
are added.S
Compatibility
siRNA
search tool requires:
Netscape7.0 or higher or Internet Explorer 5.1 or higher.
IIt has been testet on:
Mac OS9, Windows XP/2000, Compaq Tru64 v5.1 and Red Hat Linux.
Reference
Levenkova,
N., Gu, G., Rux, J.J. (2003) Gene Specific siRNA Selector. Bioinformatics
2004 20: 430-432
Download
Standalone gene-specific siRNA selector
server for Unix and Linux platforms.
Please e-mail comments and suggestions
to bioinfo@wistar.upenn.edu
Created by Natasha Levenkova, Qingjuan(Grace) Gu and John J. Rux
Last modified: Fri March 16 13:00:02 EST 2007 |
