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Appl Bioinformatics. 2006;5(2):121-4.

OligoMatcher: analysis and selection of specific oligonucleotide sequences for gene silencing by antisense or siRNA.

Author information

1
Department of Computer and Information Science, Indiana University - Purdue University Indianapolis, Indianapolis, Indiana, USA.

Abstract

OligoMatcher is a web-based tool for analysis and selection of unique oligonucleotide sequences for gene silencing by antisense oligonucleotides (ASOs) or small interfering RNA (siRNA). A specific BLAST server was built for analysing sequences of ASOs that target pre-mRNA in the cell nucleus. Tissue- and cell-specific expression data of potential cross-reactive genes are integrated in the OligoMatcher program, which allows biologists to select unique oligonucleotide sequences for their target genes in specific experimental systems.

AVAILABILITY:

The OligoMatcher web server is available at http://shelob.cs.iupui.edu:18081/oligomatch.php. The source code is freely available for non-profit use on request to the authors.

CONTACT:

Mathew Palakal (mpalakal@cs.iupui.edu) or Shuyu Li (li_shuyu_dan@lilly.com).

PMID:
16722778
[Indexed for MEDLINE]
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