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

CRISPR (clustered regularly interspaced short palin-dromic 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.

Domaines

Bio-Informatique, Biologie Systémique [q-bio.QM] Génétique des populations [q-bio.PE] Bactériologie Génomique, Transcriptomique et Protéomique [q-bio.GN] Evolution [q-bio.PE] Bio-informatique [q-bio.QM]

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Couvin.NAR.18.CRISPRCasFinder.pdf (2.44 Mo)

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https://pasteur.hal.science/pasteur-02098389

Soumis le : vendredi 12 avril 2019-16:00:23

Dernière modification le : lundi 29 juillet 2024-18:32:23

Dates et versions

pasteur-02098389 , version 1 (12-04-2019)

Licence

Paternité - Pas d'utilisation commerciale

Identifiants

HAL Id : pasteur-02098389 , version 1
DOI : 10.1093/nar/gky425
PUBMED : 29790974
PUBMEDCENTRAL : PMC6030898

Citer

David Couvin, Aude Bernheim, Claire Toffano-Nioche, Marie Touchon, Juraj Michalik, et al.. CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins. Nucleic Acids Research, 2018, 46 (W1), pp.W246-W251. ⟨10.1093/nar/gky425⟩. ⟨pasteur-02098389⟩

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