{"id":"https://openalex.org/W4320067909","doi":"https://doi.org/10.1145/3545008.3545066","title":"Tensor-Accelerated Fourth-Order Epistasis Detection on GPUs","display_name":"Tensor-Accelerated Fourth-Order Epistasis Detection on GPUs","publication_year":2022,"publication_date":"2022-08-29","ids":{"openalex":"https://openalex.org/W4320067909","doi":"https://doi.org/10.1145/3545008.3545066"},"language":"en","primary_location":{"id":"doi:10.1145/3545008.3545066","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3545008.3545066","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 51st International Conference on Parallel Processing","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/A5033761371","display_name":"Ricardo Nobre","orcid":"https://orcid.org/0000-0002-0059-5775"},"institutions":[{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]},{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Ricardo Nobre","raw_affiliation_strings":["INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024686169","display_name":"Aleksandar Ili\u0107","orcid":"https://orcid.org/0000-0002-8594-3539"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Aleksandar Ilic","raw_affiliation_strings":["INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044896136","display_name":"Sergio Santander\u2010Jim\u00e9nez","orcid":"https://orcid.org/0000-0002-2862-2026"},"institutions":[{"id":"https://openalex.org/I80606768","display_name":"Universidad de Extremadura","ror":"https://ror.org/0174shg90","country_code":"ES","type":"education","lineage":["https://openalex.org/I80606768"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Sergio Santander-Jim\u00e9nez","raw_affiliation_strings":["University of Extremadura (UNEX), Spain"],"affiliations":[{"raw_affiliation_string":"University of Extremadura (UNEX), Spain","institution_ids":["https://openalex.org/I80606768"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077537777","display_name":"Leonel Sousa","orcid":"https://orcid.org/0000-0002-8066-221X"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I121345201","display_name":"Instituto de Engenharia de Sistemas e Computadores Investiga\u00e7\u00e3o e Desenvolvimento","ror":"https://ror.org/04mqy3p58","country_code":"PT","type":"nonprofit","lineage":["https://openalex.org/I121345201","https://openalex.org/I4210125590"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Leonel Sousa","raw_affiliation_strings":["INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal"],"affiliations":[{"raw_affiliation_string":"INESC-ID, Portugal and Instituto Superior T\u00e9cnico, Universidade de Lisboa, Portugal","institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5033761371"],"corresponding_institution_ids":["https://openalex.org/I121345201","https://openalex.org/I141596103"],"apc_list":null,"apc_paid":null,"fwci":0.5305,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.72041062,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9930999875068665,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9930999875068665,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9860000014305115,"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/T12303","display_name":"Tensor decomposition and applications","score":0.9695000052452087,"subfield":{"id":"https://openalex.org/subfields/2605","display_name":"Computational Mathematics"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6769611835479736},{"id":"https://openalex.org/keywords/epistasis","display_name":"Epistasis","score":0.6740341186523438},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.4924229383468628},{"id":"https://openalex.org/keywords/tensor","display_name":"Tensor (intrinsic definition)","score":0.48328474164009094},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.45925045013427734},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.4585942327976227},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.4527859091758728},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.32628965377807617},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32052212953567505},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22730347514152527},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1777217984199524},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.17104685306549072},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.13346228003501892}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6769611835479736},{"id":"https://openalex.org/C61727976","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Epistasis","level":3,"score":0.6740341186523438},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.4924229383468628},{"id":"https://openalex.org/C155281189","wikidata":"https://www.wikidata.org/wiki/Q3518150","display_name":"Tensor (intrinsic definition)","level":2,"score":0.48328474164009094},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.45925045013427734},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.4585942327976227},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.4527859091758728},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32628965377807617},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32052212953567505},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22730347514152527},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1777217984199524},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17104685306549072},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.13346228003501892},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"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/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3545008.3545066","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3545008.3545066","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 51st International Conference on Parallel Processing","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2441341484","display_name":null,"funder_award_id":"UIDB/50021/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G3456667330","display_name":null,"funder_award_id":"956213","funder_id":"https://openalex.org/F4320338475","funder_display_name":"H2020 LEIT Information and Communication Technologies"}],"funders":[{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"},{"id":"https://openalex.org/F4320338475","display_name":"H2020 LEIT Information and Communication Technologies","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W2042680665","https://openalex.org/W2070644791","https://openalex.org/W2117138514","https://openalex.org/W2118215201","https://openalex.org/W2295760680","https://openalex.org/W2474201146","https://openalex.org/W2484422940","https://openalex.org/W2727539851","https://openalex.org/W2791822589","https://openalex.org/W2906166739","https://openalex.org/W2947625469","https://openalex.org/W3094120352","https://openalex.org/W3132920560"],"related_works":["https://openalex.org/W17155033","https://openalex.org/W3207760230","https://openalex.org/W1496222301","https://openalex.org/W1590307681","https://openalex.org/W2536018345","https://openalex.org/W4312814274","https://openalex.org/W4285370786","https://openalex.org/W2296488620","https://openalex.org/W2358353312","https://openalex.org/W2353836703"],"abstract_inverted_index":{"The":[0],"improved":[1],"accessibility":[2],"of":[3,11,51,61,73,92,102,106,126,140,168,211,217,234,239],"gene":[4],"sequencing":[5],"technologies":[6],"has":[7],"led":[8],"to":[9,18,38,54,137,142,173,213],"creation":[10],"huge":[12],"datasets,":[13],"i.e.":[14],"patient":[15],"records":[16],"related":[17,136,240],"certain":[19],"human":[20],"diseases":[21],"(phenotypes).":[22],"Hence,":[23],"deriving":[24],"fast":[25],"and":[26,57,87,164,183],"accurate":[27],"algorithms":[28],"for":[29,68,197],"efficiently":[30,132],"processing":[31,124,138],"these":[32],"datasets":[33],"is":[34,65],"a":[35,84,93,103,115,209],"paramount":[36],"concern":[37],"enable":[39],"some":[40],"key":[41],"healthcare":[42],"scenarios,":[43],"such":[44],"as":[45],"personalizing":[46],"treatments,":[47],"explaining":[48],"the":[49,59,74,151,174,190,205,222],"occurrence":[50],"and/or":[52],"susceptibility":[53],"complex":[55],"conditions":[56],"reducing":[58],"spread":[60],"infectious":[62],"diseases.":[63],"This":[64],"especially":[66],"true":[67],"high-order":[69],"epistasis":[70,118],"detection,":[71],"one":[72],"most":[75],"computationally":[76],"challenging":[77],"problems":[78],"in":[79,159],"bioinformatics,":[80],"where":[81],"associations":[82],"between":[83],"given":[85],"phenotype":[86],"single":[88],"nucleotide":[89],"polymorphisms":[90],"(SNPs)":[91],"population":[94],"can":[95],"often":[96],"only":[97],"be":[98],"uncovered":[99],"through":[100],"evaluation":[101],"large":[104],"number":[105],"SNP":[107],"combinations.":[108],"To":[109],"tackle":[110],"this":[111],"challenge,":[112],"we":[113],"propose":[114],"novel":[116],"fourth-order":[117],"detection":[119],"algorithm":[120],"that":[121,150,193,238],"leverages":[122],"tensor":[123,195],"capabilities":[125],"two":[127,230],"distinct":[128],"accelerator":[129],"architectures":[130],"by":[131],"mapping":[133],"core":[134],"computations":[135],"quads":[139,167,216],"SNPs":[141,169,218],"binary":[143],"tensor-accelerated":[144],"matrix":[145],"operations.":[146],"Experimental":[147],"results":[148],"show":[149],"proposed":[152,206],"approach":[153,192],"delivers":[154],"very":[155],"high":[156],"performance":[157,210,229],"even":[158],"single-GPU":[160],"environments,":[161],"e.g.,":[162],"27.8":[163],"90.9":[165],"tera":[166,215],"per":[170,219],"second,":[171],"scaled":[172],"sample":[175],"size,":[176],"were":[177],"processed":[178],"on":[179,221],"Titan":[180],"RTX":[181],"(Turing)":[182],"A100":[184,225],"(Ampere)":[185],"PCIe":[186],"GPUs,":[187],"respectively.":[188],"Being":[189],"first":[191],"exploits":[194],"cores":[196],"accelerating":[198],"searches":[199],"with":[200],"interaction":[201],"order":[202],"above":[203],"three,":[204],"method":[207],"achieved":[208],"up":[212],"835.4":[214],"second":[220],"8-GPU":[223],"HGX":[224],"server,":[226],"which":[227],"represents":[228],"or":[231],"more":[232],"orders":[233],"magnitude":[235],"higher":[236],"than":[237],"art.":[241]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}