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KOnezumi: a web application for automating gene disruption strategies to generate knockout mice

SUMMARY: Although gene editing using the CRISPR/Cas9 system enables the rapid generation of knockout mice, constructing an optimal gene disruption strategy is still labourious. Here, we propose KOnezumi, a simple and user-friendly web application, for use in automating the design of knockout strateg...

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Detalles Bibliográficos
Autores principales: Kuno, Akihiro, Mizuno, Seiya, Takahashi, Satoru
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6748778/
https://www.ncbi.nlm.nih.gov/pubmed/30726877
http://dx.doi.org/10.1093/bioinformatics/btz090
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author Kuno, Akihiro
Mizuno, Seiya
Takahashi, Satoru
author_facet Kuno, Akihiro
Mizuno, Seiya
Takahashi, Satoru
author_sort Kuno, Akihiro
collection PubMed
description SUMMARY: Although gene editing using the CRISPR/Cas9 system enables the rapid generation of knockout mice, constructing an optimal gene disruption strategy is still labourious. Here, we propose KOnezumi, a simple and user-friendly web application, for use in automating the design of knockout strategies for multiple genes. Users only need to input gene symbols, and then KOnezumi returns target exons, gRNA candidates to delete the target exons, genotyping PCR primers, nucleotide sequences of the target exons and coding sequences of expected deletion products. KOnezumi enables users to easily and rapidly apply a rational strategy to accelerate the generation of KO mice using the CRISPR/Cas9 system. AVAILABILITY AND IMPLEMENTATION: This web application is freely available at http://www.md.tsukuba.ac.jp/LabAnimalResCNT/KOanimals/konezumi.html. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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spelling pubmed-67487782019-09-23 KOnezumi: a web application for automating gene disruption strategies to generate knockout mice Kuno, Akihiro Mizuno, Seiya Takahashi, Satoru Bioinformatics Applications Notes SUMMARY: Although gene editing using the CRISPR/Cas9 system enables the rapid generation of knockout mice, constructing an optimal gene disruption strategy is still labourious. Here, we propose KOnezumi, a simple and user-friendly web application, for use in automating the design of knockout strategies for multiple genes. Users only need to input gene symbols, and then KOnezumi returns target exons, gRNA candidates to delete the target exons, genotyping PCR primers, nucleotide sequences of the target exons and coding sequences of expected deletion products. KOnezumi enables users to easily and rapidly apply a rational strategy to accelerate the generation of KO mice using the CRISPR/Cas9 system. AVAILABILITY AND IMPLEMENTATION: This web application is freely available at http://www.md.tsukuba.ac.jp/LabAnimalResCNT/KOanimals/konezumi.html. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Oxford University Press 2019-09-15 2019-02-06 /pmc/articles/PMC6748778/ /pubmed/30726877 http://dx.doi.org/10.1093/bioinformatics/btz090 Text en © The Author(s) 2019. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Notes
Kuno, Akihiro
Mizuno, Seiya
Takahashi, Satoru
KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title_full KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title_fullStr KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title_full_unstemmed KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title_short KOnezumi: a web application for automating gene disruption strategies to generate knockout mice
title_sort konezumi: a web application for automating gene disruption strategies to generate knockout mice
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6748778/
https://www.ncbi.nlm.nih.gov/pubmed/30726877
http://dx.doi.org/10.1093/bioinformatics/btz090
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AT takahashisatoru konezumiawebapplicationforautomatinggenedisruptionstrategiestogenerateknockoutmice