3FunMap: full-sib family functional mapping of dynamic traits.
Identifieur interne : 003024 ( Main/Exploration ); précédent : 003023; suivant : 0030253FunMap: full-sib family functional mapping of dynamic traits.
Auteurs : Chunfa Tong [République populaire de Chine] ; Zhong Wang ; Bo Zhang ; Jisen Shi ; Rongling WuSource :
- Bioinformatics (Oxford, England) [ 1367-4811 ] ; 2011.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Populus.
- méthodes : Cartographie chromosomique.
- Fratrie, Locus de caractère quantitatif, Logiciel, Marqueurs génétiques, Modèles génétiques, Simulation numérique.
English descriptors
- KwdEn :
- MESH :
- chemical : Genetic Markers.
- genetics : Populus.
- methods : Chromosome Mapping.
- Computer Simulation, Models, Genetic, Quantitative Trait Loci, Siblings, Software.
Abstract
MOTIVATION
Functional mapping that embeds the developmental mechanisms of complex traits shows great power to study the dynamic pattern of genetic effects triggered by individual quantitative trait loci (QTLs). A full-sib family, produced by crossing two heterozygous parents, is characteristic of uncertainties about cross-type at a locus and linkage phase between different loci. Integrating functional mapping into a full-sib family requires a model selection procedure capable of addressing these uncertainties. 3FunMap, written in VC++ 6.0, provides a flexible and extensible platform to perform full-sib functional mapping of dynamic traits. Functions in the package encompass linkage phase determination, marker map construction and the pattern identification of QTL segregation, dynamic tests of QTL effects, permutation tests and numerical simulation. We demonstrate the features of 3FunMap through real data analysis and computer simulation.
AVAILABILITY
http://statgen.psu.edu/software.
DOI: 10.1093/bioinformatics/btr306
PubMed: 21586519
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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sortKey="Shi, Jisen" sort="Shi, Jisen" uniqKey="Shi J" first="Jisen" last="Shi">Jisen Shi</name></author><author><name sortKey="Wu, Rongling" sort="Wu, Rongling" uniqKey="Wu R" first="Rongling" last="Wu">Rongling Wu</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2011">2011</date><idno type="RBID">pubmed:21586519</idno><idno type="pmid">21586519</idno><idno type="doi">10.1093/bioinformatics/btr306</idno><idno type="wicri:Area/Main/Corpus">002E11</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002E11</idno><idno type="wicri:Area/Main/Curation">002E11</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002E11</idno><idno type="wicri:Area/Main/Exploration">002E11</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">3FunMap: full-sib family functional mapping of dynamic traits.</title><author><name sortKey="Tong, Chunfa" sort="Tong, Chunfa" 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last="Wu">Rongling Wu</name></author></analytic><series><title level="j">Bioinformatics (Oxford, England)</title><idno type="eISSN">1367-4811</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosome Mapping (methods)</term><term>Computer Simulation (MeSH)</term><term>Genetic Markers (MeSH)</term><term>Models, Genetic (MeSH)</term><term>Populus (genetics)</term><term>Quantitative Trait Loci (MeSH)</term><term>Siblings (MeSH)</term><term>Software (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Cartographie chromosomique (méthodes)</term><term>Fratrie (MeSH)</term><term>Locus de caractère quantitatif (MeSH)</term><term>Logiciel (MeSH)</term><term>Marqueurs génétiques (MeSH)</term><term>Modèles génétiques (MeSH)</term><term>Populus (génétique)</term><term>Simulation numérique (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Genetic Markers</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Chromosome Mapping</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Cartographie chromosomique</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Computer Simulation</term><term>Models, Genetic</term><term>Quantitative Trait Loci</term><term>Siblings</term><term>Software</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Fratrie</term><term>Locus de caractère quantitatif</term><term>Logiciel</term><term>Marqueurs génétiques</term><term>Modèles génétiques</term><term>Simulation numérique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>MOTIVATION</b></p><p>Functional mapping that embeds the developmental mechanisms of complex traits shows great power to study the dynamic pattern of genetic effects triggered by individual quantitative trait loci (QTLs). A full-sib family, produced by crossing two heterozygous parents, is characteristic of uncertainties about cross-type at a locus and linkage phase between different loci. Integrating functional mapping into a full-sib family requires a model selection procedure capable of addressing these uncertainties. 3FunMap, written in VC++ 6.0, provides a flexible and extensible platform to perform full-sib functional mapping of dynamic traits. Functions in the package encompass linkage phase determination, marker map construction and the pattern identification of QTL segregation, dynamic tests of QTL effects, permutation tests and numerical simulation. We demonstrate the features of 3FunMap through real data analysis and computer simulation.</p></div><div type="abstract" xml:lang="en"><p><b>AVAILABILITY</b></p><p>http://statgen.psu.edu/software.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">21586519</PMID><DateCompleted><Year>2011</Year><Month>10</Month><Day>25</Day></DateCompleted><DateRevised><Year>2018</Year><Month>12</Month><Day>01</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1367-4811</ISSN><JournalIssue CitedMedium="Internet"><Volume>27</Volume><Issue>14</Issue><PubDate><Year>2011</Year><Month>Jul</Month><Day>15</Day></PubDate></JournalIssue><Title>Bioinformatics (Oxford, England)</Title><ISOAbbreviation>Bioinformatics</ISOAbbreviation></Journal><ArticleTitle>3FunMap: full-sib family functional mapping of dynamic traits.</ArticleTitle><Pagination><MedlinePgn>2006-8</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1093/bioinformatics/btr306</ELocationID><Abstract><AbstractText Label="MOTIVATION" NlmCategory="BACKGROUND">Functional mapping that embeds the developmental mechanisms of complex traits shows great power to study the dynamic pattern of genetic effects triggered by individual quantitative trait loci (QTLs). A full-sib family, produced by crossing two heterozygous parents, is characteristic of uncertainties about cross-type at a locus and linkage phase between different loci. Integrating functional mapping into a full-sib family requires a model selection procedure capable of addressing these uncertainties. 3FunMap, written in VC++ 6.0, provides a flexible and extensible platform to perform full-sib functional mapping of dynamic traits. Functions in the package encompass linkage phase determination, marker map construction and the pattern identification of QTL segregation, dynamic tests of QTL effects, permutation tests and numerical simulation. 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