Genome Annotation and Curation Using MAKER and MAKER-P
Identifieur interne : 000431 ( Pmc/Corpus ); précédent : 000430; suivant : 000432Genome Annotation and Curation Using MAKER and MAKER-P
Auteurs : Michael S. Campbell ; Carson Holt ; Barry Moore ; Mark YandellSource :
- Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] [ 1934-3396 ] ; 2014.
Abstract
This unit describes how to use the genome annotation and curation tools MAKER and MAKER-P to annotate protein coding and non-coding RNA genes in newly assembled genomes, update/combine legacy annotations in light of new evidence, add quality metrics to annotations from other pipelines, and map existing annotations to a new assembly. MAKER and MAKER-P can rapidly annotate genomes of any size, and scale to match available computational resources.
Url:
DOI: 10.1002/0471250953.bi0411s48
PubMed: 25501943
PubMed Central: 4286374
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PMC:4286374Le document en format XML
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<author><name sortKey="Campbell, Michael S" sort="Campbell, Michael S" uniqKey="Campbell M" first="Michael S." last="Campbell">Michael S. Campbell</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Holt, Carson" sort="Holt, Carson" uniqKey="Holt C" first="Carson" last="Holt">Carson Holt</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<affiliation><nlm:aff id="A2"> USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Moore, Barry" sort="Moore, Barry" uniqKey="Moore B" first="Barry" last="Moore">Barry Moore</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<affiliation><nlm:aff id="A2"> USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Yandell, Mark" sort="Yandell, Mark" uniqKey="Yandell M" first="Mark" last="Yandell">Mark Yandell</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<affiliation><nlm:aff id="A2"> USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Holt, Carson" sort="Holt, Carson" uniqKey="Holt C" first="Carson" last="Holt">Carson Holt</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<affiliation><nlm:aff id="A2"> USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Moore, Barry" sort="Moore, Barry" uniqKey="Moore B" first="Barry" last="Moore">Barry Moore</name>
<affiliation><nlm:aff id="A1"> Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<affiliation><nlm:aff id="A2"> USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</nlm:aff>
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<author><name sortKey="Yandell, Mark" sort="Yandell, Mark" uniqKey="Yandell M" first="Mark" last="Yandell">Mark Yandell</name>
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<front><div type="abstract" xml:lang="en"><p id="P1">This unit describes how to use the genome annotation and curation tools MAKER and MAKER-P to annotate protein coding and non-coding RNA genes in newly assembled genomes, update/combine legacy annotations in light of new evidence, add quality metrics to annotations from other pipelines, and map existing annotations to a new assembly. MAKER and MAKER-P can rapidly annotate genomes of any size, and scale to match available computational resources.</p>
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<front><journal-meta><journal-id journal-id-type="nlm-journal-id">101157830</journal-id>
<journal-id journal-id-type="pubmed-jr-id">34237</journal-id>
<journal-id journal-id-type="nlm-ta">Curr Protoc Bioinformatics</journal-id>
<journal-id journal-id-type="iso-abbrev">Curr Protoc Bioinformatics</journal-id>
<journal-title-group><journal-title>Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.]</journal-title>
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<issn pub-type="ppub">1934-3396</issn>
<issn pub-type="epub">1934-340X</issn>
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<article-id pub-id-type="manuscript">NIHMS649996</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Article</subject>
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<title-group><article-title>Genome Annotation and Curation Using MAKER and MAKER-P</article-title>
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<contrib-group><contrib contrib-type="author"><name><surname>Campbell</surname>
<given-names>Michael S.</given-names>
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<contrib contrib-type="author"><name><surname>Holt</surname>
<given-names>Carson</given-names>
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<xref ref-type="aff" rid="A1">1</xref>
<xref ref-type="aff" rid="A2">2</xref>
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<contrib contrib-type="author"><name><surname>Moore</surname>
<given-names>Barry</given-names>
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<xref ref-type="aff" rid="A1">1</xref>
<xref ref-type="aff" rid="A2">2</xref>
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<contrib contrib-type="author"><name><surname>Yandell</surname>
<given-names>Mark</given-names>
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<xref ref-type="aff" rid="A1">1</xref>
<xref ref-type="aff" rid="A2">2</xref>
<xref ref-type="corresp" rid="CR1">*</xref>
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<aff id="A1"><label>1</label>
Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112 USA</aff>
<aff id="A2"><label>2</label>
USTAR Center for Genetic Discovery, University of Utah, Salt Lake City, UT 84112 USA</aff>
<author-notes><corresp id="CR1"><label>*</label>
Corresponding author, <email>myandell@genetics.utah.edu</email>
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<pub-date pub-type="nihms-submitted"><day>19</day>
<month>12</month>
<year>2014</year>
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<month>12</month>
<year>2014</year>
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<pub-date pub-type="collection"><year>2014</year>
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<pub-date pub-type="pmc-release"><day>12</day>
<month>12</month>
<year>2015</year>
</pub-date>
<volume>48</volume>
<fpage>4.11.1</fpage>
<lpage>4.11.39</lpage>
<pmc-comment>elocation-id from pubmed: 10.1002/0471250953.bi0411s48</pmc-comment>
<abstract><p id="P1">This unit describes how to use the genome annotation and curation tools MAKER and MAKER-P to annotate protein coding and non-coding RNA genes in newly assembled genomes, update/combine legacy annotations in light of new evidence, add quality metrics to annotations from other pipelines, and map existing annotations to a new assembly. MAKER and MAKER-P can rapidly annotate genomes of any size, and scale to match available computational resources.</p>
</abstract>
<kwd-group><kwd>genome annotation</kwd>
<kwd>comparative genomics</kwd>
<kwd>gene finding</kwd>
<kwd>Plants</kwd>
</kwd-group>
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