SNP-CRISPR: A Web Tool for SNP-Specific Genome Editing

Bibliographic Details
Title:	SNP-CRISPR: A Web Tool for SNP-Specific Genome Editing
Authors:	Chiao-Lin Chen, Jonathan Rodiger, Verena Chung, Raghuvir Viswanatha, Stephanie E. Mohr, Yanhui Hu, Norbert Perrimon
Source:	G3: Genes, Genomes, Genetics, Vol 10, Iss 2, Pp 489-494 (2020)
Publisher Information:	Oxford University Press, 2020.
Publication Year:	2020
Collection:	LCC:Genetics
Subject Terms:	genome editing, crispr, genome variant, Genetics, QH426-470
More Details:	CRISPR-Cas9 is a powerful genome editing technology in which a single guide RNA (sgRNA) confers target site specificity to achieve Cas9-mediated genome editing. Numerous sgRNA design tools have been developed based on reference genomes for humans and model organisms. However, existing resources are not optimal as genetic mutations or single nucleotide polymorphisms (SNPs) within the targeting region affect the efficiency of CRISPR-based approaches by interfering with guide-target complementarity. To facilitate identification of sgRNAs (1) in non-reference genomes, (2) across varying genetic backgrounds, or (3) for specific targeting of SNP-containing alleles, for example, disease relevant mutations, we developed a web tool, SNP-CRISPR (https://www.flyrnai.org/tools/snp_crispr/). SNP-CRISPR can be used to design sgRNAs based on public variant data sets or user-identified variants. In addition, the tool computes efficiency and specificity scores for sgRNA designs targeting both the variant and the reference. Moreover, SNP-CRISPR provides the option to upload multiple SNPs and target single or multiple nearby base changes simultaneously with a single sgRNA design. Given these capabilities, SNP-CRISPR has a wide range of potential research applications in model systems and for design of sgRNAs for disease-associated variant correction.
Document Type:	article
File Description:	electronic resource
Language:	English
ISSN:	2160-1836
Relation:	https://doaj.org/toc/2160-1836
DOI:	10.1534/g3.119.400904
Access URL:	https://doaj.org/article/9454be2f303a4b628536073e096b5d0a
Accession Number:	edsdoj.9454be2f303a4b628536073e096b5d0a
Database:	Directory of Open Access Journals

FullText	Text: Availability: 0 CustomLinks: – Url: https://resolver.ebsco.com/c/xy5jbn/result?sid=EBSCO:edsdoj&genre=article&issn=21601836&ISBN=&volume=10&issue=2&date=20200201&spage=489&pages=489-494&title=G3: Genes, Genomes, Genetics&atitle=SNP-CRISPR%3A%20A%20Web%20Tool%20for%20SNP-Specific%20Genome%20Editing&aulast=Chiao-Lin%20Chen&id=DOI:10.1534/g3.119.400904 Name: Full Text Finder (for New FTF UI) (s8985755) Category: fullText Text: Find It @ SCU Libraries MouseOverText: Find It @ SCU Libraries – Url: https://doaj.org/article/9454be2f303a4b628536073e096b5d0a Name: EDS - DOAJ (s8985755) Category: fullText Text: View record from DOAJ MouseOverText: View record from DOAJ
Header	DbId: edsdoj DbLabel: Directory of Open Access Journals An: edsdoj.9454be2f303a4b628536073e096b5d0a RelevancyScore: 930 AccessLevel: 3 PubType: Academic Journal PubTypeId: academicJournal PreciseRelevancyScore: 930.031188964844
IllustrationInfo
Items	– Name: Title Label: Title Group: Ti Data: SNP-CRISPR: A Web Tool for SNP-Specific Genome Editing – Name: Author Label: Authors Group: Au Data: <searchLink fieldCode="AR" term="%22Chiao-Lin+Chen%22">Chiao-Lin Chen</searchLink><br /><searchLink fieldCode="AR" term="%22Jonathan+Rodiger%22">Jonathan Rodiger</searchLink><br /><searchLink fieldCode="AR" term="%22Verena+Chung%22">Verena Chung</searchLink><br /><searchLink fieldCode="AR" term="%22Raghuvir+Viswanatha%22">Raghuvir Viswanatha</searchLink><br /><searchLink fieldCode="AR" term="%22Stephanie+E%2E+Mohr%22">Stephanie E. Mohr</searchLink><br /><searchLink fieldCode="AR" term="%22Yanhui+Hu%22">Yanhui Hu</searchLink><br /><searchLink fieldCode="AR" term="%22Norbert+Perrimon%22">Norbert Perrimon</searchLink> – Name: TitleSource Label: Source Group: Src Data: G3: Genes, Genomes, Genetics, Vol 10, Iss 2, Pp 489-494 (2020) – Name: Publisher Label: Publisher Information Group: PubInfo Data: Oxford University Press, 2020. – Name: DatePubCY Label: Publication Year Group: Date Data: 2020 – Name: Subset Label: Collection Group: HoldingsInfo Data: LCC:Genetics – Name: Subject Label: Subject Terms Group: Su Data: <searchLink fieldCode="DE" term="%22genome+editing%22">genome editing</searchLink><br /><searchLink fieldCode="DE" term="%22crispr%22">crispr</searchLink><br /><searchLink fieldCode="DE" term="%22genome+variant%22">genome variant</searchLink><br /><searchLink fieldCode="DE" term="%22Genetics%22">Genetics</searchLink><br /><searchLink fieldCode="DE" term="%22QH426-470%22">QH426-470</searchLink> – Name: Abstract Label: Description Group: Ab Data: CRISPR-Cas9 is a powerful genome editing technology in which a single guide RNA (sgRNA) confers target site specificity to achieve Cas9-mediated genome editing. Numerous sgRNA design tools have been developed based on reference genomes for humans and model organisms. However, existing resources are not optimal as genetic mutations or single nucleotide polymorphisms (SNPs) within the targeting region affect the efficiency of CRISPR-based approaches by interfering with guide-target complementarity. To facilitate identification of sgRNAs (1) in non-reference genomes, (2) across varying genetic backgrounds, or (3) for specific targeting of SNP-containing alleles, for example, disease relevant mutations, we developed a web tool, SNP-CRISPR (https://www.flyrnai.org/tools/snp_crispr/). SNP-CRISPR can be used to design sgRNAs based on public variant data sets or user-identified variants. In addition, the tool computes efficiency and specificity scores for sgRNA designs targeting both the variant and the reference. Moreover, SNP-CRISPR provides the option to upload multiple SNPs and target single or multiple nearby base changes simultaneously with a single sgRNA design. Given these capabilities, SNP-CRISPR has a wide range of potential research applications in model systems and for design of sgRNAs for disease-associated variant correction. – Name: TypeDocument Label: Document Type Group: TypDoc Data: article – Name: Format Label: File Description Group: SrcInfo Data: electronic resource – Name: Language Label: Language Group: Lang Data: English – Name: ISSN Label: ISSN Group: ISSN Data: 2160-1836 – Name: NoteTitleSource Label: Relation Group: SrcInfo Data: https://doaj.org/toc/2160-1836 – Name: DOI Label: DOI Group: ID Data: 10.1534/g3.119.400904 – Name: URL Label: Access URL Group: URL Data: <link linkTarget="URL" linkTerm="https://doaj.org/article/9454be2f303a4b628536073e096b5d0a" linkWindow="_blank">https://doaj.org/article/9454be2f303a4b628536073e096b5d0a</link> – Name: AN Label: Accession Number Group: ID Data: edsdoj.9454be2f303a4b628536073e096b5d0a
PLink	https://login.libproxy.scu.edu/login?url=https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&scope=site&db=edsdoj&AN=edsdoj.9454be2f303a4b628536073e096b5d0a
RecordInfo	BibRecord: BibEntity: Identifiers: – Type: doi Value: 10.1534/g3.119.400904 Languages: – Text: English PhysicalDescription: Pagination: PageCount: 6 StartPage: 489 Subjects: – SubjectFull: genome editing Type: general – SubjectFull: crispr Type: general – SubjectFull: genome variant Type: general – SubjectFull: Genetics Type: general – SubjectFull: QH426-470 Type: general Titles: – TitleFull: SNP-CRISPR: A Web Tool for SNP-Specific Genome Editing Type: main BibRelationships: HasContributorRelationships: – PersonEntity: Name: NameFull: Chiao-Lin Chen – PersonEntity: Name: NameFull: Jonathan Rodiger – PersonEntity: Name: NameFull: Verena Chung – PersonEntity: Name: NameFull: Raghuvir Viswanatha – PersonEntity: Name: NameFull: Stephanie E. Mohr – PersonEntity: Name: NameFull: Yanhui Hu – PersonEntity: Name: NameFull: Norbert Perrimon IsPartOfRelationships: – BibEntity: Dates: – D: 01 M: 02 Type: published Y: 2020 Identifiers: – Type: issn-print Value: 21601836 Numbering: – Type: volume Value: 10 – Type: issue Value: 2 Titles: – TitleFull: G3: Genes, Genomes, Genetics Type: main
ResultId	1