CRISPRoff (v1.2beta): off-targeting assessment of Cas9 gRNAs


For the stand-alone version of CRISPRspec and CRISPRoff computing pipeline, you can download the python scripts that are used in the background of our webserver in the following link. The pipeline is released under the the GNU public license version 3 or later.

Instructions for installing and running the software is included in the README file also available with the downloaded with the software.

Additionally, to perform off-target predictions in the organisms that are not included in this webserver, you will need to use the the RIsearch2(v2.1) RNA-RNA interaction prediction software, that can locate Cas9-off-targets. The tool is available here.


CRISPRon/off: CRISPR/Cas9 on- and off-target gRNA design

Anthon C, Corsi GI, Gorodkin J* Bioinformatics. 2022 Dec 13;38(24):5437-5439
[ PubMed | Paper | Webserver ]

CRISPR-Cas9 off-targeting assessment with nucleic acid duplex energy parameters

Alkan F, Wenzel A, Anthon C, Havgaard JH, Gorodkin J* Genome Biol. 2018 Oct 26;19(1):177
[ PubMed | Paper | Webserver | Software ]

RIsearch2: suffix array-based large-scale prediction of RNA-RNA interactions and siRNA off-targets

Alkan F*, Wenzel A*, Palasca O, Kerpedjiev P*, Rudebeck AF, Stadler PF, Hofacker IL, Gorodkin J* Nucleic Acids Res. 2017 May 5;45(8):e60
[ PubMed | Paper | Software ]


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