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CRISPRz: a database of zebrafish validated sgRNAs
NHGRI, Translat & Funct Genom Branch, NIH, Bethesda, MD 20892 USA..
NHGRI, Computat & Stat Genom Branch, NIH, Bethesda, MD 20892 USA..
NHGRI, Translat & Funct Genom Branch, NIH, Bethesda, MD 20892 USA..
NHGRI, Translat & Funct Genom Branch, NIH, Bethesda, MD 20892 USA..
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2016 (English)In: Nucleic Acids Research, ISSN 0305-1048, E-ISSN 1362-4962, Vol. 44, no D1, D822-D826 p.Article in journal (Refereed) PublishedText
Abstract [en]

CRISPRz (http://research.nhgri.nih.gov/CRISPRz/) is a database of CRISPR/Cas9 target sequences that have been experimentally validated in zebrafish. Programmable RNA-guided CRISPR/Cas9 has recently emerged as a simple and efficient genome editing method in various cell types and organisms, including zebrafish. Because the technique is so easy and efficient in zebrafish, the most valuable asset is no longer a mutated fish (which has distribution challenges), but rather a CRISPR/Cas9 target sequence to the gene confirmed to have high mutagenic efficiency. With a highly active CRISPR target, a mutant fish can be quickly replicated in any genetic background anywhere in the world. However, sgRNA's vary widely in their activity and models for predicting target activity are imperfect. Thus, it is very useful to collect in one place validated CRISPR target sequences with their relative mutagenic activities. A researcher could then select a target of interest in the database with an expected activity. Here, we report the development of CRISPRz, a database of validated zebrafish CRISPR target sites collected from published sources, as well as from our own in-house large-scale mutagenesis project. CRISPRz can be searched using multiple inputs such as ZFIN IDs, accession number, UniGene ID, or gene symbols from zebrafish, human and mouse.

Place, publisher, year, edition, pages
2016. Vol. 44, no D1, D822-D826 p.
National Category
Biochemistry and Molecular Biology Evolutionary Biology
URN: urn:nbn:se:uu:diva-282501DOI: 10.1093/nar/gkv998ISI: 000371261700116PubMedID: 26438539OAI: oai:DiVA.org:uu-282501DiVA: diva2:917084
NIH (National Institute of Health), 1ZIAHG000183-14
Available from: 2016-04-05 Created: 2016-04-05 Last updated: 2016-04-05Bibliographically approved

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Ledin, Johan
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