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dc.contributor.authorLabun, Kornel
dc.contributor.authorMontague, Tessa G.
dc.contributor.authorKrause, Maximilian
dc.contributor.authorTorres Cleuren, Yamila Nicole
dc.contributor.authorTjeldnes, Håkon
dc.contributor.authorValen, Eivind
dc.date.accessioned2020-06-11T17:22:38Z
dc.date.available2020-06-11T17:22:38Z
dc.date.issued2019-07-02
dc.PublishedLabun K, Montague TG, Krause M, Torres Cleuren YN, Tjeldnes H, Valen E. CHOPCHOP v3: expanding the CRISPR web toolbox beyond genome editing. Nucleic Acids Research. 2019;47(W1):W171-W174eng
dc.identifier.issn0305-1048en_US
dc.identifier.issn1362-4962en_US
dc.identifier.urihttps://hdl.handle.net/1956/22546
dc.description.abstractThe CRISPR–Cas system is a powerful genome editing tool that functions in a diverse array of organisms and cell types. The technology was initially developed to induce targeted mutations in DNA, but CRISPR–Cas has now been adapted to target nucleic acids for a range of purposes. CHOPCHOP is a web tool for identifying CRISPR–Cas single guide RNA (sgRNA) targets. In this major update of CHOPCHOP, we expand our toolbox beyond knockouts. We introduce functionality for targeting RNA with Cas13, which includes support for alternative transcript isoforms and RNA accessibility predictions. We incorporate new DNA targeting modes, including CRISPR activation/repression, targeted enrichment of loci for long-read sequencing, and prediction of Cas9 repair outcomes. Finally, we expand our results page visualization to reveal alternative isoforms and downstream ATG sites, which will aid users in avoiding the expression of truncated proteins. The CHOPCHOP web tool now supports over 200 genomes and we have released a command-line script for running larger jobs and handling unsupported genomes. CHOPCHOP v3 can be found at https://chopchop.cbu.uib.noen_US
dc.language.isoengeng
dc.publisherOxford University Pressen_US
dc.rightsAttribution CC BYeng
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/eng
dc.titleCHOPCHOP v3: expanding the CRISPR web toolbox beyond genome editingen_US
dc.typePeer reviewed
dc.typeJournal article
dc.date.updated2020-01-10T12:13:11Z
dc.description.versionpublishedVersionen_US
dc.rights.holderCopyright 2019 The Author(s)en_US
dc.identifier.doihttps://doi.org/10.1093/nar/gkz365
dc.identifier.cristin1725813
dc.source.journalNucleic Acids Research


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