{"id":"https://openalex.org/W2131807721","doi":"https://doi.org/10.1186/1471-2105-10-s1-s74","title":"A fast algorithm for genome-wide haplotype pattern mining","display_name":"A fast algorithm for genome-wide haplotype pattern mining","publication_year":2009,"publication_date":"2009-01-01","ids":{"openalex":"https://openalex.org/W2131807721","doi":"https://doi.org/10.1186/1471-2105-10-s1-s74","mag":"2131807721","pmid":"https://pubmed.ncbi.nlm.nih.gov/19208179"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-10-s1-s74","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s1-s74","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S1-S74","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S1-S74","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5016579115","display_name":"S\u00f8ren Besenbacher","orcid":"https://orcid.org/0000-0003-1455-1738"},"institutions":[{"id":"https://openalex.org/I204337017","display_name":"Aarhus University","ror":"https://ror.org/01aj84f44","country_code":"DK","type":"education","lineage":["https://openalex.org/I204337017"]}],"countries":["DK"],"is_corresponding":true,"raw_author_name":"S\u00f8ren Besenbacher","raw_affiliation_strings":["Bioinformatics Research Center, University of Aarhus, Denmark. besen@birc.au.dk","Bioinformatics Research Center, University of Aarhus, Denmark","Department of Computer Science, University of Aarhus, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Center, University of Aarhus, Denmark. besen@birc.au.dk","institution_ids":["https://openalex.org/I204337017"]},{"raw_affiliation_string":"Bioinformatics Research Center, University of Aarhus, Denmark","institution_ids":["https://openalex.org/I204337017"]},{"raw_affiliation_string":"Department of Computer Science, University of Aarhus, Denmark","institution_ids":["https://openalex.org/I204337017"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103578511","display_name":"Christian NS Pedersen","orcid":null},"institutions":[{"id":"https://openalex.org/I204337017","display_name":"Aarhus University","ror":"https://ror.org/01aj84f44","country_code":"DK","type":"education","lineage":["https://openalex.org/I204337017"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Christian NS Pedersen","raw_affiliation_strings":["Bioinformatics Research Center, University of Aarhus, Denmark","Department of Computer Science, University of Aarhus, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Center, University of Aarhus, Denmark","institution_ids":["https://openalex.org/I204337017"]},{"raw_affiliation_string":"Department of Computer Science, University of Aarhus, Denmark","institution_ids":["https://openalex.org/I204337017"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071092440","display_name":"Thomas Mailund","orcid":"https://orcid.org/0000-0001-6206-9239"},"institutions":[{"id":"https://openalex.org/I204337017","display_name":"Aarhus University","ror":"https://ror.org/01aj84f44","country_code":"DK","type":"education","lineage":["https://openalex.org/I204337017"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Thomas Mailund","raw_affiliation_strings":["Bioinformatics Research Center, University of Aarhus, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Research Center, University of Aarhus, Denmark","institution_ids":["https://openalex.org/I204337017"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5016579115"],"corresponding_institution_ids":["https://openalex.org/I204337017"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.5779,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.74337654,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"10","issue":"S1","first_page":"S74","last_page":"S74"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9506000280380249,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9506000280380249,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.012799999676644802,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.004800000227987766,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/haplotype","display_name":"Haplotype","score":0.8227696418762207},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6758130788803101},{"id":"https://openalex.org/keywords/genotyping","display_name":"Genotyping","score":0.6423062682151794},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.5088620185852051},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49850034713745117},{"id":"https://openalex.org/keywords/haplotype-estimation","display_name":"Haplotype estimation","score":0.4612959623336792},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4324151575565338},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4238261878490448},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.370985746383667},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.36935997009277344},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3592357635498047},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.34357142448425293},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1266079843044281}],"concepts":[{"id":"https://openalex.org/C197754878","wikidata":"https://www.wikidata.org/wiki/Q80711","display_name":"Haplotype","level":4,"score":0.8227696418762207},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6758130788803101},{"id":"https://openalex.org/C31467283","wikidata":"https://www.wikidata.org/wiki/Q912147","display_name":"Genotyping","level":4,"score":0.6423062682151794},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.5088620185852051},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49850034713745117},{"id":"https://openalex.org/C44432683","wikidata":"https://www.wikidata.org/wiki/Q17145705","display_name":"Haplotype estimation","level":5,"score":0.4612959623336792},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4324151575565338},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4238261878490448},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.370985746383667},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36935997009277344},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3592357635498047},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.34357142448425293},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1266079843044281}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-10-s1-s74","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s1-s74","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S1-S74","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19208179","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19208179","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pure.atira.dk:openaire/df5fb5e0-e704-11dd-8fc3-000ea68e967b","is_oa":true,"landing_page_url":"https://pure.au.dk/portal/en/publications/df5fb5e0-e704-11dd-8fc3-000ea68e967b","pdf_url":null,"source":null,"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Besenbacher, S, Pedersen, C S & Mailund, T 2009, 'A fast algorithm for genome wide haplotype pattern mining', BMC Bioinformatics, no. suppl. 1, pp. 772. https://doi.org/10.1186/1471-2105-10-S1-S74","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:976277da56e24075a896fd4186c78edd","is_oa":false,"landing_page_url":"https://doaj.org/article/976277da56e24075a896fd4186c78edd","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 10, Iss Suppl 1, p S74 (2009)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2648728","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2648728","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-10-s1-s74","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-s1-s74","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-S1-S74","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2131807721.pdf","grobid_xml":"https://content.openalex.org/works/W2131807721.grobid-xml"},"referenced_works_count":21,"referenced_works":["https://openalex.org/W1964853169","https://openalex.org/W1990059547","https://openalex.org/W2027688494","https://openalex.org/W2046427628","https://openalex.org/W2048755332","https://openalex.org/W2055381990","https://openalex.org/W2065218625","https://openalex.org/W2070898412","https://openalex.org/W2091143313","https://openalex.org/W2100688536","https://openalex.org/W2100773239","https://openalex.org/W2124718950","https://openalex.org/W2126384007","https://openalex.org/W2131889332","https://openalex.org/W2134783591","https://openalex.org/W2138345444","https://openalex.org/W2155635136","https://openalex.org/W2157050695","https://openalex.org/W2164716330","https://openalex.org/W2171179933","https://openalex.org/W2171682260"],"related_works":["https://openalex.org/W2377518790","https://openalex.org/W2394359576","https://openalex.org/W2463477745","https://openalex.org/W2349105149","https://openalex.org/W1499399347","https://openalex.org/W2468405568","https://openalex.org/W2170167789","https://openalex.org/W2105845028","https://openalex.org/W1522648572","https://openalex.org/W2066735477"],"abstract_inverted_index":{"BACKGROUND:":[0],"Identifying":[1],"the":[2,21,36,102,114,118,120,129,138,143,168,179],"genetic":[3],"components":[4],"of":[5,14,41,110,122,132,149,199,203,205],"common":[6],"diseases":[7],"has":[8,19],"long":[9],"been":[10],"an":[11],"important":[12],"area":[13],"research.":[15],"Recently,":[16],"genotyping":[17],"technology":[18],"reached":[20],"level":[22],"where":[23],"it":[24,186],"is":[25,60,85,125,171,187],"cost":[26],"effective":[27],"to":[28,56,90,189,192],"genotype":[29],"single":[30],"nucleotide":[31],"polymorphism":[32],"(SNP)":[33],"markers":[34,48,63,77,161],"covering":[35],"entire":[37],"genome,":[38,119],"in":[39,113,117,159],"thousands":[40,198,204],"individuals,":[42],"and":[43,165,182,201],"analyse":[44],"such":[45],"data":[46],"for":[47,101],"associated":[49],"with":[50,146,155,197],"a":[51,68,86,97,147,152],"diseases.":[52],"The":[53,79,105,174],"statistical":[54],"power":[55],"detect":[57],"association,":[58],"however,":[59],"limited":[61],"when":[62],"are":[64],"analysed":[65],"one":[66],"at":[67],"time.":[69],"This":[70],"can":[71],"be":[72],"alleviated":[73],"by":[74],"considering":[75],"multiple":[76],"simultaneously.":[78],"Haplotype":[80],"Pattern":[81],"Mining":[82],"(HPM)":[83],"method":[84,145,181],"machine":[87],"learning":[88],"approach":[89,107,140],"do":[91],"exactly":[92],"this.":[93],"RESULTS:":[94],"We":[95,135],"present":[96],"new,":[98],"faster":[99],"algorithm":[100,176],"HPM":[103,144,180,191],"method.":[104],"new":[106,139,175],"use":[108],"patterns":[109],"haplotype":[111],"diversity":[112],"genome:":[115],"locally":[116],"number":[121,131],"observed":[123],"haplotypes":[124],"much":[126],"smaller":[127],"than":[128],"total":[130],"possible":[133],"haplotypes.":[134],"show":[136,184],"that":[137,185],"speeds":[141,177],"up":[142,178],"factor":[148],"2":[150],"on":[151],"genome-wide":[153],"dataset":[154],"5009":[156],"individuals":[157,200],"typed":[158],"491208":[160],"using":[162],"default":[163],"parameters":[164],"more":[166],"if":[167],"pattern":[169],"length":[170],"increased.":[172],"CONCLUSION:":[173],"we":[183],"feasible":[188],"apply":[190],"whole":[193],"genome":[194],"association":[195],"mapping":[196],"hundreds":[202],"markers.":[206]},"counts_by_year":[{"year":2012,"cited_by_count":2}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
