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Article: Merlin - Rapid analysis of dense genetic maps using sparse gene flow trees

TitleMerlin - Rapid analysis of dense genetic maps using sparse gene flow trees
Authors
Issue Date2002
PublisherNature Publishing Group. The Journal's web site is located at http://www.genetics.nature.com
Citation
Nature Genetics, 2002, v. 30 n. 1, p. 97-101 How to Cite?
AbstractEfforts to find disease genes using high-density single-nucleotide polymorphism (SNP) maps will produce data sets that exceed the limitations of current computational tools. Here we describe a new, efficient method for the analysis of dense genetic maps in pedigree data that provides extremely fast solutions to common problems such as allele-sharing analyses and haplotyping. We show that sparse binary trees represent patterns of gene flow in general pedigrees in a parsimonious manner, and derive a family of related algorithms for pedigree traversal. With these trees, exact likelihood calculations can be carried out efficiently for single markers or for multiple linked markers. Using an approximate multipoint calculation that ignores the unlikely possibility of a large number of recombinants further improves speed and provides accurate solutions in dense maps with thousands of markers. Our multipoint engine for rapid likelihood inference (Merlin) is a computer program that uses sparse inheritance trees for pedigree analysis; it performs rapid haplotyping, genotype error detection and affected pair linkage analyses and can handle more markers than other pedigree analysis packages.
Persistent Identifierhttp://hdl.handle.net/10722/143663
ISSN
2015 Impact Factor: 31.616
2015 SCImago Journal Rankings: 23.762
ISI Accession Number ID
References

 

DC FieldValueLanguage
dc.contributor.authorAbecasis, GRen_HK
dc.contributor.authorCherny, SSen_HK
dc.contributor.authorCookson, WOen_HK
dc.contributor.authorCardon, LRen_HK
dc.date.accessioned2011-12-16T08:09:12Z-
dc.date.available2011-12-16T08:09:12Z-
dc.date.issued2002en_HK
dc.identifier.citationNature Genetics, 2002, v. 30 n. 1, p. 97-101en_HK
dc.identifier.issn1061-4036en_HK
dc.identifier.urihttp://hdl.handle.net/10722/143663-
dc.description.abstractEfforts to find disease genes using high-density single-nucleotide polymorphism (SNP) maps will produce data sets that exceed the limitations of current computational tools. Here we describe a new, efficient method for the analysis of dense genetic maps in pedigree data that provides extremely fast solutions to common problems such as allele-sharing analyses and haplotyping. We show that sparse binary trees represent patterns of gene flow in general pedigrees in a parsimonious manner, and derive a family of related algorithms for pedigree traversal. With these trees, exact likelihood calculations can be carried out efficiently for single markers or for multiple linked markers. Using an approximate multipoint calculation that ignores the unlikely possibility of a large number of recombinants further improves speed and provides accurate solutions in dense maps with thousands of markers. Our multipoint engine for rapid likelihood inference (Merlin) is a computer program that uses sparse inheritance trees for pedigree analysis; it performs rapid haplotyping, genotype error detection and affected pair linkage analyses and can handle more markers than other pedigree analysis packages.en_HK
dc.publisherNature Publishing Group. The Journal's web site is located at http://www.genetics.nature.comen_HK
dc.relation.ispartofNature Geneticsen_HK
dc.titleMerlin - Rapid analysis of dense genetic maps using sparse gene flow treesen_HK
dc.typeArticleen_HK
dc.identifier.emailCherny, SS: cherny@hku.hken_HK
dc.identifier.authorityCherny, SS=rp00232en_HK
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.doi10.1038/ng786en_HK
dc.identifier.pmid11731797-
dc.identifier.scopuseid_2-s2.0-0036338150en_HK
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-0036338150&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume30en_HK
dc.identifier.issue1en_HK
dc.identifier.spage97en_HK
dc.identifier.epage101en_HK
dc.identifier.isiWOS:000173105600021-
dc.publisher.placeUnited Statesen_HK
dc.identifier.f10001002690-
dc.identifier.scopusauthoridAbecasis, GR=6604013253en_HK
dc.identifier.scopusauthoridCherny, SS=7004670001en_HK
dc.identifier.scopusauthoridCookson, WO=35261536800en_HK
dc.identifier.scopusauthoridCardon, LR=7005082964en_HK
dc.identifier.citeulike1272009-

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