GT-Scan: identifying unique genomic targets

O'Brien, Aidan and Bailey, Timothy L. (2014) GT-Scan: identifying unique genomic targets. Bioinformatics, 30 18: 2673-2675. doi:10.1093/bioinformatics/btu354


Author O'Brien, Aidan
Bailey, Timothy L.
Title GT-Scan: identifying unique genomic targets
Journal name Bioinformatics   Check publisher's open access policy
ISSN 1367-4803
1367-4811
Publication date 2014-09-15
Year available 2014
Sub-type Article (original research)
DOI 10.1093/bioinformatics/btu354
Volume 30
Issue 18
Start page 2673
End page 2675
Total pages 3
Place of publication Oxford, United Kingdom
Publisher Oxford University Press
Language eng
Abstract A number of technologies, including CRISPR/Cas, transcription activator-like effector nucleases and zinc-finger nucleases, allow the user to target a chosen locus for genome editing or regulatory interference. Specificity, however, is a major problem, and the targeted locus must be chosen with care to avoid inadvertently affecting other loci (‘off-targets’) in the genome. To address this we have created ‘Genome Target Scan’ (GT-Scan), a flexible web-based tool that ranks all potential targets in a user-selected region of a genome in terms of how many off-targets they have. GT-Scan gives the user flexibility to define the desired characteristics of targets and off-targets via a simple ‘target rule’, and its interactive output allows detailed inspection of each of the most promising candidate targets. GT-Scan can be used to identify optimal targets for CRISPR/Cas systems, but its flexibility gives it potential to be adapted to other genome-targeting technologies as well.
Q-Index Code CX
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
Institute for Molecular Bioscience - Publications
 
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Citation counts: TR Web of Science Citation Count  Cited 30 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 28 times in Scopus Article | Citations
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