{"id":"https://openalex.org/W2052090195","doi":"https://doi.org/10.1109/bigdata.2014.7004271","title":"Identification of SNP interactions using data-parallel primitives on GPUs","display_name":"Identification of SNP interactions using data-parallel primitives on GPUs","publication_year":2014,"publication_date":"2014-10-01","ids":{"openalex":"https://openalex.org/W2052090195","doi":"https://doi.org/10.1109/bigdata.2014.7004271","mag":"2052090195"},"language":"en","primary_location":{"id":"doi:10.1109/bigdata.2014.7004271","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bigdata.2014.7004271","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 Big Data (Big Data)","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/A5077202288","display_name":"Can Altinigneli","orcid":null},"institutions":[{"id":"https://openalex.org/I8204097","display_name":"Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/05591te55","country_code":"DE","type":"education","lineage":["https://openalex.org/I8204097"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Can Altinigneli","raw_affiliation_strings":["University of Munich, Munich, Germany","University of Munich, Munich, GERMANY#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Munich, Munich, Germany","institution_ids":["https://openalex.org/I8204097"]},{"raw_affiliation_string":"University of Munich, Munich, GERMANY#TAB#","institution_ids":["https://openalex.org/I8204097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010914609","display_name":"Bettina Konten","orcid":null},"institutions":[{"id":"https://openalex.org/I4210152429","display_name":"University Hospital in Halle","ror":"https://ror.org/04fe46645","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210152429"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Bettina Konten","raw_affiliation_strings":["Universitatsklinikum Halle, Halle, Sachsen-Anhalt, DE","University of Halle, Halle, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitatsklinikum Halle, Halle, Sachsen-Anhalt, DE","institution_ids":["https://openalex.org/I4210152429"]},{"raw_affiliation_string":"University of Halle, Halle, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012839928","display_name":"Dan Rujescir","orcid":null},"institutions":[{"id":"https://openalex.org/I4210152429","display_name":"University Hospital in Halle","ror":"https://ror.org/04fe46645","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210152429"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dan Rujescir","raw_affiliation_strings":["Universitatsklinikum Halle, Halle, Sachsen-Anhalt, DE","University of Halle, Halle, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitatsklinikum Halle, Halle, Sachsen-Anhalt, DE","institution_ids":["https://openalex.org/I4210152429"]},{"raw_affiliation_string":"University of Halle, Halle, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062860517","display_name":"Christian B\u00f6hm","orcid":"https://orcid.org/0000-0002-2237-9969"},"institutions":[{"id":"https://openalex.org/I8204097","display_name":"Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/05591te55","country_code":"DE","type":"education","lineage":["https://openalex.org/I8204097"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christian Bohm","raw_affiliation_strings":["University of Munich, Munich, Germany","University of Munich, Munich, GERMANY#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Munich, Munich, Germany","institution_ids":["https://openalex.org/I8204097"]},{"raw_affiliation_string":"University of Munich, Munich, GERMANY#TAB#","institution_ids":["https://openalex.org/I8204097"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009516958","display_name":"Claudia Plant","orcid":"https://orcid.org/0000-0001-5274-8123"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Claudia Plant","raw_affiliation_strings":["Helmholtz Zentrum M\u00fcnchen, Technische Universit\u00e4t M\u00fcnchen, Munich, Germany","Helmholtz Zentrum M\u00fcnchen, Technische Universit\u00e4t M\u00fcnchen, Munich, Germany#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Helmholtz Zentrum M\u00fcnchen, Technische Universit\u00e4t M\u00fcnchen, Munich, Germany","institution_ids":["https://openalex.org/I3018134672","https://openalex.org/I62916508"]},{"raw_affiliation_string":"Helmholtz Zentrum M\u00fcnchen, Technische Universit\u00e4t M\u00fcnchen, Munich, Germany#TAB#","institution_ids":["https://openalex.org/I62916508"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.09838948,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"349","issue":null,"first_page":"539","last_page":"548"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9991999864578247,"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":0.9991999864578247,"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":0.9926999807357788,"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/T11213","display_name":"Genomic variations and chromosomal abnormalities","score":0.9921000003814697,"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":0.8461207151412964},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.698986828327179},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.5021247863769531},{"id":"https://openalex.org/keywords/data-parallelism","display_name":"Data parallelism","score":0.47800126671791077},{"id":"https://openalex.org/keywords/graphics-processing-unit","display_name":"Graphics processing unit","score":0.4566790461540222},{"id":"https://openalex.org/keywords/simd","display_name":"SIMD","score":0.45454663038253784},{"id":"https://openalex.org/keywords/parallel-algorithm","display_name":"Parallel algorithm","score":0.4533126652240753},{"id":"https://openalex.org/keywords/shared-memory","display_name":"Shared memory","score":0.4248039126396179},{"id":"https://openalex.org/keywords/parallelism","display_name":"Parallelism (grammar)","score":0.29338550567626953}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8461207151412964},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.698986828327179},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.5021247863769531},{"id":"https://openalex.org/C61483411","wikidata":"https://www.wikidata.org/wiki/Q3124522","display_name":"Data parallelism","level":3,"score":0.47800126671791077},{"id":"https://openalex.org/C2779851693","wikidata":"https://www.wikidata.org/wiki/Q183484","display_name":"Graphics processing unit","level":2,"score":0.4566790461540222},{"id":"https://openalex.org/C150552126","wikidata":"https://www.wikidata.org/wiki/Q339387","display_name":"SIMD","level":2,"score":0.45454663038253784},{"id":"https://openalex.org/C120373497","wikidata":"https://www.wikidata.org/wiki/Q1087987","display_name":"Parallel algorithm","level":2,"score":0.4533126652240753},{"id":"https://openalex.org/C133875982","wikidata":"https://www.wikidata.org/wiki/Q764810","display_name":"Shared memory","level":2,"score":0.4248039126396179},{"id":"https://openalex.org/C2781172179","wikidata":"https://www.wikidata.org/wiki/Q853109","display_name":"Parallelism (grammar)","level":2,"score":0.29338550567626953}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/bigdata.2014.7004271","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bigdata.2014.7004271","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 Big Data (Big Data)","raw_type":"proceedings-article"},{"id":"pmh:oai:opus-zb.helmholtz-muenchen.de:43096","is_oa":false,"landing_page_url":"https://push-zb.helmholtz-muenchen.de/frontdoor.php?source_opus=43096","pdf_url":null,"source":{"id":"https://openalex.org/S4377196115","display_name":"Site cant be reached","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":"In: Proceedings (IEEE International Conference on Big Data, 27-30 October 2014, Washington, DC, USA). Piscataway, NJ: IEEE, 2014.","raw_type":"conferenceObject"},{"id":"pmh:oai:push-zb.helmholtz-munich.de:43096","is_oa":false,"landing_page_url":"https://push-zb.helmholtz-munich.de/frontdoor.php?source_opus=43096","pdf_url":null,"source":{"id":"https://openalex.org/S7407055352","display_name":"PuSH - Publication Server of Helmholtz Zentrum M\u00fcnchen","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":"In:. IEEE, 2014.","raw_type":"info:eu-repo/semantics/conferenceObject"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":24,"referenced_works":["https://openalex.org/W1553069021","https://openalex.org/W1594031697","https://openalex.org/W1978695468","https://openalex.org/W2005848760","https://openalex.org/W2026577398","https://openalex.org/W2040841898","https://openalex.org/W2047487074","https://openalex.org/W2065618747","https://openalex.org/W2076279664","https://openalex.org/W2077723521","https://openalex.org/W2089358134","https://openalex.org/W2096791516","https://openalex.org/W2109353557","https://openalex.org/W2133298971","https://openalex.org/W2149654513","https://openalex.org/W2161633633","https://openalex.org/W2189135377","https://openalex.org/W2249637006","https://openalex.org/W2912934387","https://openalex.org/W3085162807","https://openalex.org/W4212883601","https://openalex.org/W4231211138","https://openalex.org/W4251169171","https://openalex.org/W6662021636"],"related_works":["https://openalex.org/W1977335621","https://openalex.org/W2074226157","https://openalex.org/W1850429294","https://openalex.org/W2183609308","https://openalex.org/W2594155508","https://openalex.org/W4380318712","https://openalex.org/W1592269555","https://openalex.org/W2111953042","https://openalex.org/W1504250522","https://openalex.org/W2174814320"],"abstract_inverted_index":{"A":[0,81],"major":[1],"goal":[2],"of":[3,58,61,84,145,169,187,208,259],"a":[4,27,40,54,70,209,225],"Genome":[5],"Wide":[6],"Association":[7],"Study":[8],"(GWAS)":[9],"is":[10,39,148,228,261],"to":[11,42,52,149,164,175,181,184,200,214,239,250,272,276],"find":[12],"associations":[13],"between":[14,46],"genetic":[15],"variations,":[16],"such":[17,30,116],"as":[18,31,117],"Single-Nucleotide":[19],"Polymorphisms":[20],"(SNPs)":[21],"and":[22,86,93,128,139,197,205,267],"the":[23,50,63,112,151,166,177,188,193,202,256],"risk":[24,51],"for":[25,44,74,111],"developing":[26,154],"complex":[28],"disease,":[29],"cancer":[32],"or":[33],"schizophrenia.":[34],"Logic":[35],"Feature":[36],"Selection":[37],"(logicFS)":[38],"technique":[41],"search":[43],"interactions":[45,247],"SNPs":[47],"possibly":[48],"enhancing":[49],"develop":[53],"particular":[55],"disease.":[56],"Composed":[57],"several":[59],"hundreds":[60],"processors,":[62],"Graphics":[64],"Processing":[65],"Unit":[66],"(GPU)":[67],"has":[68],"become":[69],"very":[71,91],"interesting":[72],"platform":[73],"computationally":[75],"demanding":[76],"tasks":[77],"on":[78],"massive":[79],"data.":[80],"special":[82,203],"hierarchy":[83],"processors":[85],"fast":[87],"memory":[88,204],"units":[89],"allow":[90,150],"powerful":[92],"efficient":[94],"parallelization":[95],"but":[96,234],"also":[97,236],"demands":[98],"novel":[99],"parallel":[100,114,132,140,152,178],"algorithms.":[101],"In":[102],"this":[103,120,216],"paper,":[104],"we":[105,122],"formulate":[106,176],"LogicFS-GPU":[107,179,227,260],"algorithm":[108,147,180,196],"particularly":[109],"suited":[110],"data":[113,131],"architectures,":[115],"GPUs.":[118],"For":[119],"purpose,":[121],"employ":[123],"low":[124],"(or":[125],"device)":[126],"level":[127,130],"high":[129,159],"primitives,":[133],"e.g.":[134],"map,":[135],"compaction,":[136],"parallel-prefix-sum":[137],"(scan)":[138],"reduction.":[141],"The":[142],"primary":[143],"idea":[144],"our":[146,274],"threads":[153,219],"cooperatively":[155],"their":[156],"own":[157],"private":[158],"quality":[160],"binary":[161,245],"interaction":[162],"models":[163],"predict":[165],"affection":[167],"status":[168],"subjects.":[170],"We":[171],"demonstrate":[172],"(1)":[173],"how":[174,199],"be":[182,237,251,270],"able":[183],"exploit":[185],"most":[186],"potential":[189],"parallelism":[190],"hidden":[191],"in":[192,212,220,242],"base":[194],"logicFS":[195],"(2)":[198],"utilize":[201],"processor":[206],"architecture":[207,258],"modern":[210],"GPU":[211,266],"order":[213],"share":[215],"information":[217],"among":[218],"an":[221],"optimal":[222],"way.":[223],"As":[224],"perspective,":[226],"not":[229,262],"limited":[230],"examining":[231],"SNP":[232],"interactions,":[233],"can":[235],"applied":[238],"any":[240,277],"problem":[241],"which":[243],"multi-variate":[244],"predictor":[246],"are":[248],"tried":[249],"associated":[252],"with":[253],"observations.":[254],"Furthermore,":[255],"target":[257,279],"only":[263],"constrained":[264],"by":[265],"it":[268],"may":[269],"possible":[271],"port":[273],"formulation":[275],"other":[278],"data-parallel":[280],"architecture.":[281]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
