{"id":"https://openalex.org/W2747405077","doi":"https://doi.org/10.1093/bioinformatics/btx510","title":"HaploForge: a comprehensive pedigree drawing and haplotype visualization web application","display_name":"HaploForge: a comprehensive pedigree drawing and haplotype visualization web application","publication_year":2017,"publication_date":"2017-08-10","ids":{"openalex":"https://openalex.org/W2747405077","doi":"https://doi.org/10.1093/bioinformatics/btx510","mag":"2747405077","pmid":"https://pubmed.ncbi.nlm.nih.gov/28961780"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/24/3871/25168475/btx510.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/24/3871/25168475/btx510.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043795166","display_name":"Mehmet Tekman","orcid":"https://orcid.org/0000-0002-4181-2676"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mehmet Tekman","raw_affiliation_strings":["Division of Medicine, University College London, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medicine, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007118986","display_name":"Alan Medlar","orcid":"https://orcid.org/0000-0002-5139-9483"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Alan Medlar","raw_affiliation_strings":["Institute of Biotechnology, University of Helsinki, Helsinki, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology, University of Helsinki, Helsinki, Finland","institution_ids":["https://openalex.org/I133731052"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040332760","display_name":"Monika Mozere","orcid":null},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Monika Mozere","raw_affiliation_strings":["Division of Medicine, University College London, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medicine, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043234105","display_name":"Robert Kleta","orcid":"https://orcid.org/0000-0002-0228-8656"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Robert Kleta","raw_affiliation_strings":["Division of Medicine, University College London, London, UK"],"raw_orcid":"https://orcid.org/0000-0002-0228-8656","affiliations":[{"raw_affiliation_string":"Division of Medicine, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064875792","display_name":"Horia Stanescu","orcid":"https://orcid.org/0000-0001-5853-5030"},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Horia Stanescu","raw_affiliation_strings":["Division of Medicine, University College London, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medicine, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5043234105"],"corresponding_institution_ids":["https://openalex.org/I45129253"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.2002,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.64016724,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"33","issue":"24","first_page":"3871","last_page":"3877"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.771399974822998,"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":0.771399974822998,"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":0.04430000111460686,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.026100000366568565,"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":0.7645031213760376},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.7189434766769409},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5714569091796875},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.49278905987739563},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.4893018901348114},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.24951010942459106},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22412678599357605},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19328072667121887},{"id":"https://openalex.org/keywords/allele","display_name":"Allele","score":0.07078704237937927},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.05000683665275574}],"concepts":[{"id":"https://openalex.org/C197754878","wikidata":"https://www.wikidata.org/wiki/Q80711","display_name":"Haplotype","level":4,"score":0.7645031213760376},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.7189434766769409},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5714569091796875},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.49278905987739563},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.4893018901348114},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.24951010942459106},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22412678599357605},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19328072667121887},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.07078704237937927},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.05000683665275574}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D008040","descriptor_name":"Genetic Linkage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008040","descriptor_name":"Genetic Linkage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008040","descriptor_name":"Genetic Linkage","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010375","descriptor_name":"Pedigree","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010375","descriptor_name":"Pedigree","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010375","descriptor_name":"Pedigree","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btx510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/24/3871/25168475/btx510.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28961780","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28961780","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:10024540","is_oa":false,"landing_page_url":"https://discovery.ucl.ac.uk/id/eprint/10024540/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics , 33 (24) pp. 3871-3877. (2017)","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/24/3871/25168475/btx510.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320358","display_name":"Lowe Syndrome Trust","ror":"https://ror.org/01q5v7e13"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W1969483458","https://openalex.org/W1984508337","https://openalex.org/W1989218149","https://openalex.org/W2031296193","https://openalex.org/W2036193408","https://openalex.org/W2089314366","https://openalex.org/W2104549677","https://openalex.org/W2105306382","https://openalex.org/W2107871825","https://openalex.org/W2107935245","https://openalex.org/W2127158291","https://openalex.org/W2147248889","https://openalex.org/W2171514263","https://openalex.org/W6672626185","https://openalex.org/W6676126879"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W3146762847","https://openalex.org/W2398263405","https://openalex.org/W2056886854","https://openalex.org/W2025446304","https://openalex.org/W2166354960","https://openalex.org/W1888102361","https://openalex.org/W2131321814","https://openalex.org/W2171251480","https://openalex.org/W1492100763"],"abstract_inverted_index":{"MOTIVATION:":[0],"Haplotype":[1],"reconstruction":[2,209],"is":[3,221,226],"an":[4],"important":[5],"tool":[6],"for":[7,75,120,127,143,162],"understanding":[8],"the":[9,16,28,50,76,79,83,115,128,160],"aetiology":[10],"of":[11,20,30,36,52,68,78,98,152],"human":[12],"disease.":[13],"Haplotyping":[14],"infers":[15],"most":[17,116],"likely":[18],"phase":[19],"observed":[21],"genotypes":[22,29],"conditional":[23],"on":[24,183],"constraints":[25],"imposed":[26],"by":[27,47,87,185],"other":[31],"pedigree":[32,147],"members.":[33],"The":[34],"results":[35],"haplotype":[37,89,121,144,208],"reconstruction,":[38],"when":[39],"visualized":[40],"appropriately,":[41],"show":[42],"which":[43],"alleles":[44],"are":[45,180,239],"identical":[46],"descent":[48,186],"despite":[49],"presence":[51],"untyped":[53],"individuals.":[54],"When":[55],"used":[56,118],"in":[57],"concert":[58],"with":[59],"linkage":[60],"analysis,":[61],"haplotyping":[62],"can":[63,166,205],"help":[64],"delineate":[65],"a":[66,72,139,188,196],"locus":[67],"interest":[69],"and":[70,111,146,158,170,176,193,215,225,228],"provide":[71,195],"succinct":[73],"explanation":[74],"transmission":[77],"trait":[80],"locus.":[81],"Unfortunately,":[82],"design":[84],"choices":[85],"made":[86],"existing":[88],"visualization":[90,122,145],"programs":[91],"do":[92],"not":[93],"scale":[94],"to":[95,105,154,200],"large":[96],"numbers":[97],"markers.":[99],"Indeed,":[100],"following":[101],"haplotypes":[102,172],"from":[103,173,211],"generation":[104,106],"requires":[107],"excessive":[108],"scrolling":[109],"back":[110],"forth.":[112],"In":[113],"addition,":[114],"widely":[117],"program":[119],"produces":[123],"inconsistent":[124],"recombination":[125],"artefacts":[126],"X":[129],"chromosome.":[130],"RESULTS:":[131],"To":[132],"resolve":[133],"these":[134],"issues,":[135],"we":[136,194],"developed":[137],"HaploForge,":[138],"novel":[140,189],"web":[141],"application":[142],"drawing.":[148],"HaploForge":[149,204,220],"takes":[150],"advantage":[151],"HTML5":[153],"be":[155],"fast,":[156],"portable":[157],"avoid":[159],"need":[161],"local":[163],"installation.":[164],"It":[165],"accurately":[167],"visualize":[168],"autosomal":[169],"X-linked":[171],"both":[174],"outbred":[175],"consanguineous":[177],"pedigrees.":[178],"Haplotypes":[179],"coloured":[181],"based":[182],"identity":[184],"using":[187],"A*":[190],"search":[191],"algorithm":[192],"flexible":[197],"viewing":[198],"mode":[199],"aid":[201],"visual":[202],"inspection.":[203],"currently":[206],"process":[207],"output":[210],"Allegro,":[212],"GeneHunter,":[213],"Merlin":[214],"Simwalk.":[216],"AVAILABILITY":[217],"AND":[218],"IMPLEMENTATION:":[219],"licensed":[222],"under":[223],"GPLv3":[224],"hosted":[227],"maintained":[229],"via":[230],"GitHub.":[231],"https://github.com/mtekman/haploforge.":[232],"CONTACT:":[233],"r.kleta@ucl.ac.uk.":[234],"SUPPLEMENTARY":[235],"INFORMATION:":[236],"Supplementary":[237],"data":[238],"available":[240],"at":[241],"Bioinformatics":[242],"online.":[243]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-07-19T07:52:34.831488","created_date":"2025-10-10T00:00:00"}
