{"id":"https://openalex.org/W2085139156","doi":"https://doi.org/10.1109/bibm.2014.6999192","title":"GWIS&lt;inf&gt;FI&lt;/inf&gt;: A universal GPU interface for exhaustive search of pairwise interactions in case-control GWAS in minutes","display_name":"GWIS&lt;inf&gt;FI&lt;/inf&gt;: A universal GPU interface for exhaustive search of pairwise interactions in case-control GWAS in minutes","publication_year":2014,"publication_date":"2014-11-01","ids":{"openalex":"https://openalex.org/W2085139156","doi":"https://doi.org/10.1109/bibm.2014.6999192","mag":"2085139156"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2014.6999192","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2014.6999192","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100442072","display_name":"Qiao Wang","orcid":"https://orcid.org/0000-0001-6416-1733"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Qiao Wang","raw_affiliation_strings":["Centre for Epidemiology and Biostatistics The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Centre for Epidemiology and Biostatistics The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101694824","display_name":"Fan Shi","orcid":"https://orcid.org/0000-0002-6839-9017"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Fan Shi","raw_affiliation_strings":["Computing and Information Systems, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070786657","display_name":"Andrew Kowalczyk","orcid":null},"institutions":[{"id":"https://openalex.org/I42894916","display_name":"Data61","ror":"https://ror.org/03q397159","country_code":"AU","type":"other","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I42894916","https://openalex.org/I4387156119"]},{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Andrew Kowalczyk","raw_affiliation_strings":["Centre for Neural Engineering","Computing and Information Systems, The University of Melbourne, Parkville, Australia","NICTA Victorian Research Lab, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Centre for Neural Engineering","institution_ids":[]},{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]},{"raw_affiliation_string":"NICTA Victorian Research Lab, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595","https://openalex.org/I42894916"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027715857","display_name":"Richard M Campbell","orcid":null},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Richard M Campbell","raw_affiliation_strings":["Centre for Neural Engineering","Electrical and Electronic Engineering, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Centre for Neural Engineering","institution_ids":[]},{"raw_affiliation_string":"Electrical and Electronic Engineering, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086912690","display_name":"Benjamin Goudey","orcid":"https://orcid.org/0000-0002-2318-985X"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Benjamin Goudey","raw_affiliation_strings":["Computing and Information Systems, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055640606","display_name":"David Rawlinson","orcid":"https://orcid.org/0000-0001-9443-3840"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"David Rawlinson","raw_affiliation_strings":["Electrical and Electronic Engineering, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Electrical and Electronic Engineering, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001613337","display_name":"Aaron Harwood","orcid":"https://orcid.org/0000-0002-4183-8462"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Aaron Harwood","raw_affiliation_strings":["Computing and Information Systems, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065698056","display_name":"Herman Ferr\u00e1","orcid":null},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Herman Ferra","raw_affiliation_strings":["Centre for Neural Engineering","Computing and Information Systems, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Centre for Neural Engineering","institution_ids":[]},{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101601191","display_name":"Adam Kowalczyk","orcid":"https://orcid.org/0000-0001-9068-3383"},"institutions":[{"id":"https://openalex.org/I165779595","display_name":"University of Melbourne","ror":"https://ror.org/01ej9dk98","country_code":"AU","type":"education","lineage":["https://openalex.org/I165779595"]},{"id":"https://openalex.org/I42894916","display_name":"Data61","ror":"https://ror.org/03q397159","country_code":"AU","type":"other","lineage":["https://openalex.org/I1292875679","https://openalex.org/I2801453606","https://openalex.org/I42894916","https://openalex.org/I4387156119"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Adam Kowalczyk","raw_affiliation_strings":["Centre for Neural Engineering","Computing and Information Systems, The University of Melbourne, Parkville, Australia","NICTA Victorian Research Lab, The University of Melbourne, Parkville, Australia"],"affiliations":[{"raw_affiliation_string":"Centre for Neural Engineering","institution_ids":[]},{"raw_affiliation_string":"Computing and Information Systems, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595"]},{"raw_affiliation_string":"NICTA Victorian Research Lab, The University of Melbourne, Parkville, Australia","institution_ids":["https://openalex.org/I165779595","https://openalex.org/I42894916"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5100442072"],"corresponding_institution_ids":["https://openalex.org/I165779595"],"apc_list":null,"apc_paid":null,"fwci":0.4578,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.71350097,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"14","issue":null,"first_page":"403","last_page":"409"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9998000264167786,"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":0.9998000264167786,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9986000061035156,"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"}},{"id":"https://openalex.org/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9958000183105469,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7891648411750793},{"id":"https://openalex.org/keywords/software-portability","display_name":"Software portability","score":0.6511040329933167},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.6349390745162964},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5615609288215637},{"id":"https://openalex.org/keywords/genome-wide-association-study","display_name":"Genome-wide association study","score":0.5598529577255249},{"id":"https://openalex.org/keywords/epistasis","display_name":"Epistasis","score":0.5239922404289246},{"id":"https://openalex.org/keywords/implementation","display_name":"Implementation","score":0.5166400074958801},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5008795261383057},{"id":"https://openalex.org/keywords/snp","display_name":"SNP","score":0.41086477041244507},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32666879892349243},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.2885555922985077},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.28702622652053833},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1787026822566986},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.13910338282585144},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11498606204986572},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09355467557907104}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7891648411750793},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.6511040329933167},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.6349390745162964},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5615609288215637},{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.5598529577255249},{"id":"https://openalex.org/C61727976","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Epistasis","level":3,"score":0.5239922404289246},{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.5166400074958801},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5008795261383057},{"id":"https://openalex.org/C139275648","wikidata":"https://www.wikidata.org/wiki/Q17134011","display_name":"SNP","level":5,"score":0.41086477041244507},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32666879892349243},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.2885555922985077},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.28702622652053833},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1787026822566986},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.13910338282585144},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11498606204986572},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09355467557907104},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/bibm.2014.6999192","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2014.6999192","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},{"id":"pmh:oai:jupiter.its.unimelb.edu.au:11343/129727","is_oa":false,"landing_page_url":"http://hdl.handle.net/11343/129727","pdf_url":null,"source":{"id":"https://openalex.org/S4377196259","display_name":"Minerva Access (University of Melbourne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I165779595","host_organization_name":"The University of Melbourne","host_organization_lineage":["https://openalex.org/I165779595"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE International Conference on Bioinformatics and Biomedicine (IEEE BIBM)","raw_type":"Conference Paper"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5699999928474426,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1562526954","https://openalex.org/W1822695366","https://openalex.org/W1966315117","https://openalex.org/W1980175560","https://openalex.org/W1986235130","https://openalex.org/W1988185259","https://openalex.org/W2041170649","https://openalex.org/W2045418416","https://openalex.org/W2054883878","https://openalex.org/W2063575312","https://openalex.org/W2066669827","https://openalex.org/W2069107889","https://openalex.org/W2082719687","https://openalex.org/W2087121965","https://openalex.org/W2090713084","https://openalex.org/W2094170482","https://openalex.org/W2097508746","https://openalex.org/W2104605543","https://openalex.org/W2106040044","https://openalex.org/W2108352360","https://openalex.org/W2112966225","https://openalex.org/W2113763486","https://openalex.org/W2129961269","https://openalex.org/W2131966673","https://openalex.org/W2134783591","https://openalex.org/W2136167691","https://openalex.org/W2140249224","https://openalex.org/W2144043445","https://openalex.org/W2149723686","https://openalex.org/W2152579567","https://openalex.org/W2153512220","https://openalex.org/W2154572047","https://openalex.org/W2161633633","https://openalex.org/W2171677905"],"related_works":["https://openalex.org/W107105315","https://openalex.org/W1584537303","https://openalex.org/W4388155270","https://openalex.org/W1872724644","https://openalex.org/W4367156293","https://openalex.org/W2750549761","https://openalex.org/W28826848","https://openalex.org/W2122272819","https://openalex.org/W2994151208","https://openalex.org/W2140249224"],"abstract_inverted_index":{"Epistatic":[0],"interactions":[1,30],"between":[2],"genes":[3],"are":[4,210],"believed":[5],"to":[6,26,41,78,142,147,179,213,227],"be":[7,24,140],"a":[8,101,121,125,136,154,176],"critical":[9],"component":[10],"in":[11,43,112,120,197,208,223,236],"the":[12,33,47,56,63,164,182,220,237],"genetic":[13,29],"architecture":[14],"of":[15,35,50,55,58,107,131,156,173,219,230,248,250],"complex":[16],"diseases.":[17],"Genome":[18],"Wide":[19],"Association":[20],"Studies":[21],"(GWAS)":[22],"may":[23],"able":[25],"detect":[27],"such":[28,82],"indirectly,":[31],"via":[32,166],"identification":[34],"associated":[36],"SNP":[37,151],"markers.":[38],"Major":[39],"obstacles":[40],"progress":[42],"this":[44],"area":[45],"are:":[46],"unknown":[48],"nature":[49],"epistatic":[51],"interactions,":[52],"little":[53],"understanding":[54],"capabilities":[57],"different":[59],"filtering":[60],"methods,":[61,195],"and":[62,86,90,93,202,225],"computational":[64,97],"difficulties":[65],"for":[66,193,216,232,246,256],"exhaustive":[67],"analysis.":[68],"A":[69,129],"common":[70],"platform":[71],"enabling":[72],"various":[73],"detection":[74],"methods":[75,162],"is":[76],"needed":[77],"avoid":[79],"practical":[80],"issues":[81],"as":[83],"software":[84,200],"compatibility":[85],"portability,":[87],"incompatible":[88],"input":[89],"output":[91],"formats":[92],"varying":[94],"demands":[95],"on":[96,124],"resources.":[98],"We":[99,169,189],"developed":[100],"highly":[102],"optimised":[103],"GPU":[104,178,234],"system":[105],"capable":[106],"exhaustively":[108,180],"analysing":[109],"all":[110,172],"SNP-pairs":[111],"typical":[113],"GWAS":[114,187],"data":[115],"(0.5M":[116],"SNPs,":[117],"5K":[118],"samples)":[119],"few":[122],"minutes":[123],"standard":[126],"desktop":[127],"computer.":[128],"number":[130],"programming":[132],"elements":[133],"provided":[134],"by":[135,253],"functional":[137],"interface":[138],"can":[139],"used":[141],"construct":[143],"user-defined":[144],"statistical":[145],"tests":[146],"efficiently":[148],"score":[149],"every":[150],"pair.":[152],"As":[153,239],"proof":[155],"principle,":[157],"we":[158,243],"have":[159,170],"implemented":[160],"8":[161,254],"from":[163],"literature":[165],"our":[167,204],"interface.":[168],"applied":[171],"them":[174],"using":[175,203],"single":[177],"scan":[181],"7":[183],"popular":[184,221],"WTCCC":[185,260],"case-control":[186],"datasets.":[188],"present":[190],"timing":[191,209],"results":[192],"these":[194],"both":[196],"their":[198],"original":[199],"implementations":[201,218,235],"platform.":[205],"Significant":[206],"improvements":[207],"observed,":[211],"up":[212,226],"10000":[214],"times":[215],"CPU":[217],"FastEpistasis":[222],"PLINK":[224],"2":[228,258],"orders":[229],"magnitude":[231],"some":[233],"literature.":[238],"an":[240],"initial":[241],"discovery":[242],"show":[244],"plots":[245],"overlaps":[247],"list":[249],"selected":[251],"pairs":[252],"algorithms":[255],"Type":[257],"Diabetes,":[259],"data.":[261]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":3},{"year":2015,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
