CrisprGE: a central hub of CRISPR/Cas-based genome editing
Identifieur interne : 000045 ( Pmc/Curation ); précédent : 000044; suivant : 000046CrisprGE: a central hub of CRISPR/Cas-based genome editing
Auteurs : Karambir Kaur ; Himani Tandon ; Amit Kumar Gupta ; Manoj KumarSource :
- Database: The Journal of Biological Databases and Curation [ 1758-0463 ] ; 2015.
Abstract
CRISPR system is a powerful defense mechanism in bacteria and archaea to provide immunity against viruses. Recently, this process found a new application in intended targeting of the genomes. CRISPR-mediated genome editing is performed by two main components namely single guide RNA and Cas9 protein. Despite the enormous data generated in this area, there is a dearth of high throughput resource. Therefore, we have developed CrisprGE, a central hub of CRISPR/Cas-based genome editing. Presently, this database holds a total of 4680 entries of 223 unique genes from 32 model and other organisms. It encompasses information about the organism, gene, target gene sequences, genetic modification, modifications length, genome editing efficiency, cell line, assay, etc. This depository is developed using the open source LAMP (Linux Apache MYSQL PHP) server. User-friendly browsing, searching facility is integrated for easy data retrieval. It also includes useful tools like BLAST CrisprGE, BLAST NTdb and CRISPR Mapper. Considering potential utilities of CRISPR in the vast area of biology and therapeutics, we foresee this platform as an assistance to accelerate research in the burgeoning field of genome engineering.
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DOI: 10.1093/database/bav055
PubMed: 26120138
PubMed Central: 4483309
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">CrisprGE: a central hub of CRISPR/Cas-based genome editing</title><author><name sortKey="Kaur, Karambir" sort="Kaur, Karambir" uniqKey="Kaur K" first="Karambir" last="Kaur">Karambir Kaur</name></author><author><name sortKey="Tandon, Himani" sort="Tandon, Himani" uniqKey="Tandon H" first="Himani" last="Tandon">Himani Tandon</name></author><author><name sortKey="Gupta, Amit Kumar" sort="Gupta, Amit Kumar" uniqKey="Gupta A" first="Amit Kumar" last="Gupta">Amit Kumar Gupta</name></author><author><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26120138</idno><idno type="pmc">4483309</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4483309</idno><idno type="RBID">PMC:4483309</idno><idno type="doi">10.1093/database/bav055</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000045</idno><idno type="wicri:Area/Pmc/Curation">000045</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">CrisprGE: a central hub of CRISPR/Cas-based genome editing</title><author><name sortKey="Kaur, Karambir" sort="Kaur, Karambir" uniqKey="Kaur K" first="Karambir" last="Kaur">Karambir Kaur</name></author><author><name sortKey="Tandon, Himani" sort="Tandon, Himani" uniqKey="Tandon H" first="Himani" last="Tandon">Himani Tandon</name></author><author><name sortKey="Gupta, Amit Kumar" sort="Gupta, Amit Kumar" uniqKey="Gupta A" first="Amit Kumar" last="Gupta">Amit Kumar Gupta</name></author><author><name sortKey="Kumar, Manoj" sort="Kumar, Manoj" uniqKey="Kumar M" first="Manoj" last="Kumar">Manoj Kumar</name></author></analytic><series><title level="j">Database: The Journal of Biological Databases and Curation</title><idno type="eISSN">1758-0463</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>CRISPR system is a powerful defense mechanism in bacteria and archaea to provide immunity against viruses. Recently, this process found a new application in intended targeting of the genomes. CRISPR-mediated genome editing is performed by two main components namely single guide RNA and Cas9 protein. Despite the enormous data generated in this area, there is a dearth of high throughput resource. Therefore, we have developed CrisprGE, a central hub of CRISPR/Cas-based genome editing. Presently, this database holds a total of 4680 entries of 223 unique genes from 32 model and other organisms. It encompasses information about the organism, gene, target gene sequences, genetic modification, modifications length, genome editing efficiency, cell line, assay, etc. This depository is developed using the open source LAMP (Linux Apache MYSQL PHP) server. User-friendly browsing, searching facility is integrated for easy data retrieval. It also includes useful tools like BLAST CrisprGE, BLAST NTdb and CRISPR Mapper. Considering potential utilities of CRISPR in the vast area of biology and therapeutics, we foresee this platform as an assistance to accelerate research in the burgeoning field of genome engineering.</p><p><bold>Database URL</bold>: <ext-link ext-link-type="uri" xlink:href="http://crdd.osdd.net/servers/crisprge/">http://crdd.osdd.net/servers/crisprge/</ext-link>.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Tebas, P" uniqKey="Tebas P">P. Tebas</name></author><author><name sortKey="Stein, D" uniqKey="Stein D">D. Stein</name></author><author><name sortKey="Tang, W W" uniqKey="Tang W">W.W. Tang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Carroll, D" uniqKey="Carroll D">D. Carroll</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Bibikova, M" uniqKey="Bibikova M">M. Bibikova</name></author><author><name sortKey="Golic, M" uniqKey="Golic M">M. 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<front><journal-meta><journal-id journal-id-type="nlm-ta">Database (Oxford)</journal-id><journal-id journal-id-type="iso-abbrev">Database (Oxford)</journal-id><journal-id journal-id-type="publisher-id">databa</journal-id><journal-id journal-id-type="hwp">databa</journal-id><journal-title-group><journal-title>Database: The Journal of Biological Databases and Curation</journal-title></journal-title-group><issn pub-type="epub">1758-0463</issn><publisher><publisher-name>Oxford University Press</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">26120138</article-id><article-id pub-id-type="pmc">4483309</article-id><article-id pub-id-type="doi">10.1093/database/bav055</article-id><article-id pub-id-type="publisher-id">bav055</article-id><article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject></subj-group></article-categories><title-group><article-title>CrisprGE: a central hub of CRISPR/Cas-based genome editing</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Kaur</surname><given-names>Karambir</given-names></name></contrib><contrib contrib-type="author"><name><surname>Tandon</surname><given-names>Himani</given-names></name></contrib><contrib contrib-type="author"><name><surname>Gupta</surname><given-names>Amit Kumar</given-names></name></contrib><contrib contrib-type="author"><name><surname>Kumar</surname><given-names>Manoj</given-names></name><xref ref-type="corresp" rid="bav055-COR1">*</xref></contrib><aff>Bioinformatics Centre, Institute of Microbial Technology, Council of Scientific and Industrial Research, Sector 39A, Chandigarh 160036, India</aff></contrib-group><author-notes><corresp id="bav055-COR1">*Corresponding author: Email: Tel: <phone>+91 172 666 5453</phone>; Fax: <fax>+91 172 269 0585</fax>; Email: <email>manojk@imtech.res.in</email></corresp><fn id="bav055-FN1"><p>Citation details: Kaur,K., Tandon,H., Gupta,A.K. et al. CrisprGE: a central hub of CRISPR/Cas-based genome editing. <italic>Database</italic> (2015) Vol. 2015: article ID bav055; doi:10.1093/database/bav055</p></fn></author-notes><pub-date pub-type="collection"><year>2015</year></pub-date><pub-date pub-type="epub"><day>27</day><month>6</month><year>2015</year></pub-date><pub-date pub-type="pmc-release"><day>27</day><month>6</month><year>2015</year></pub-date><pmc-comment> PMC Release delay is 0 months and 0 days and was based on the
<volume>2015</volume><elocation-id>bav055</elocation-id><history><date date-type="received"><day>30</day><month>12</month><year>2014</year></date><date date-type="rev-recd"><day>6</day><month>5</month><year>2015</year></date><date date-type="accepted"><day>8</day><month>5</month><year>2015</year></date></history><permissions><copyright-statement>© The Author(s) 2015. Published by Oxford University Press.</copyright-statement><copyright-year>2015</copyright-year><license xlink:href="http://creativecommons.org/licenses/by/4.0/" license-type="creative-commons"><license-p>This is an Open Access article distributed under the terms of the Creative Commons Attribution License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/4.0/">http://creativecommons.org/licenses/by/4.0/</ext-link>), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p></license></permissions><abstract><p>CRISPR system is a powerful defense mechanism in bacteria and archaea to provide immunity against viruses. Recently, this process found a new application in intended targeting of the genomes. CRISPR-mediated genome editing is performed by two main components namely single guide RNA and Cas9 protein. Despite the enormous data generated in this area, there is a dearth of high throughput resource. Therefore, we have developed CrisprGE, a central hub of CRISPR/Cas-based genome editing. Presently, this database holds a total of 4680 entries of 223 unique genes from 32 model and other organisms. It encompasses information about the organism, gene, target gene sequences, genetic modification, modifications length, genome editing efficiency, cell line, assay, etc. This depository is developed using the open source LAMP (Linux Apache MYSQL PHP) server. User-friendly browsing, searching facility is integrated for easy data retrieval. It also includes useful tools like BLAST CrisprGE, BLAST NTdb and CRISPR Mapper. Considering potential utilities of CRISPR in the vast area of biology and therapeutics, we foresee this platform as an assistance to accelerate research in the burgeoning field of genome engineering.</p><p><bold>Database URL</bold>: <ext-link ext-link-type="uri" xlink:href="http://crdd.osdd.net/servers/crisprge/">http://crdd.osdd.net/servers/crisprge/</ext-link>.</p></abstract><counts><page-count count="8"></page-count></counts></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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