MultiGuideScan: a multi-processing tool for designing CRISPR guide RNA libraries

Bioinformatics
Tao LiJianxin Wang

Abstract

The recent advance in genome engineering technologies based on CRISPR/Cas9 system is enabling people to systematically understand genomic functions. A short RNA string (the CRISPR guide RNA) can guide the Cas9 endonuclease to specific locations in complex genomes to cut DNA double-strands. The CRISPR guide RNA is essential for gene editing systems. Recently, the GuideScan software is developed to design CRISPR guide RNA libraries, which can be used for genome editing of coding and non-coding genomic regions effectively. However, GuideScan is a serial program and computationally expensive for designing CRISPR guide RNA libraries from large genomes. Here, we present an efficient guide RNA library designing tool (MultiGuideScan) by implementing multiple processes of GuideScan. MultiGuideScan speeds up the guide RNA library designing about 9-12 times on a 32-process mode comparing to GuideScan. MultiGuideScan makes it possible to design guide RNA libraries from large genomes. https://github.com/bioinfomaticsCSU/MultiGuideScan. Supplementary data are available at Bioinformatics online.

References

Jan 5, 2013·Science·Le CongFeng Zhang
Jul 23, 2013·Nature Biotechnology·Patrick D HsuFeng Zhang
Feb 1, 2014·Nature Methods·Florian HeigwerMichael Boutros
Nov 29, 2014·Science·Jennifer A Doudna, Emmanuelle Charpentier
Sep 1, 2015·Nature Methods·Miguel A Moreno-MateosAntonio J Giraldez
Jan 19, 2016·Nature Biotechnology·John G DoenchDavid E Root
Mar 7, 2017·Nature Biotechnology·Alexendar R PerezAndrea Ventura

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