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CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

Couvin, David ; Bernheim, Aude ; Toffano-Nioche, Claire ; Touchon, Marie ; Michalik, Juraj ; Néron, Bertrand ; Rocha, Eduardo P C ; Vergnaud, Gilles ; Gautheret, Daniel ; Pourcel, Christine

Nucleic acids research, 2018-07, Vol.46 (W1), p.W246-W251 [Peer Reviewed Journal]

England: Oxford University Press

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Title:
CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins
Author: Couvin, David ; Bernheim, Aude ; Toffano-Nioche, Claire ; Touchon, Marie ; Michalik, Juraj ; Néron, Bertrand ; Rocha, Eduardo P C ; Vergnaud, Gilles ; Gautheret, Daniel ; Pourcel, Christine
Subjects: Bacteriology ; Biochemistry, Molecular Biology ; Biodiversity ; Bioinformatics ; Clustered Regularly Interspaced Short Palindromic Repeats ; Computer Science ; CRISPR-Associated Proteins - chemistry ; CRISPR-Associated Proteins - genetics ; CRISPR-Cas Systems ; Genetics ; Genomics ; Internet ; Life Sciences ; Microbiology and Parasitology ; Populations and Evolution ; Quantitative Methods ; Software ; Web Server Issue
Is Part Of: Nucleic acids research, 2018-07, Vol.46 (W1), p.W246-W251
Notes: ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
PMCID: PMC6030898
Description: Abstract CRISPR (clustered regularly interspaced short palindromic repeats) arrays and their associated (Cas) proteins confer bacteria and archaea adaptive immunity against exogenous mobile genetic elements, such as phages or plasmids. CRISPRCasFinder allows the identification of both CRISPR arrays and Cas proteins. The program includes: (i) an improved CRISPR array detection tool facilitating expert validation based on a rating system, (ii) prediction of CRISPR orientation and (iii) a Cas protein detection and typing tool updated to match the latest classification scheme of these systems. CRISPRCasFinder can either be used online or as a standalone tool compatible with Linux operating system. All third-party software packages employed by the program are freely available. CRISPRCasFinder is available at https://crisprcas.i2bc.paris-saclay.fr.
Publisher: England: Oxford University Press
Language: English

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CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

Couvin, David ; Bernheim, Aude ; Toffano-Nioche, Claire ; Touchon, Marie ; Michalik, Juraj ; Néron, Bertrand ; Rocha, Eduardo P C ; Vergnaud, Gilles ; Gautheret, Daniel ; Pourcel, Christine

England: Oxford University Press

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