{"id":"https://openalex.org/W4292438745","doi":"https://doi.org/10.1093/bib/bbac314","title":"A GPU-accelerated compute framework for pathogen genomic variant identification to aid genomic epidemiology of infectious disease: a malaria case study","display_name":"A GPU-accelerated compute framework for pathogen genomic variant identification to aid genomic epidemiology of infectious disease: a malaria case study","publication_year":2022,"publication_date":"2022-08-09","ids":{"openalex":"https://openalex.org/W4292438745","doi":"https://doi.org/10.1093/bib/bbac314","pmid":"https://pubmed.ncbi.nlm.nih.gov/35945154"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac314","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1093/bib/bbac314","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072143153","display_name":"Giovanna Carpi","orcid":"https://orcid.org/0000-0001-8137-6285"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Giovanna Carpi","raw_affiliation_strings":["Department of Biological Sciences, Purdue University , West Lafayette, IN, USA","Purdue Institute for Inflammation, Immunology, & Infectious Disease, Purdue University , West Lafayette, IN, USA","W. Harry Feinstone Department of Molecular Microbiology and Immunology, Johns Hopkins Malaria Research Institute, Johns Hopkins Bloomberg School of Public Health , Baltimore, MD, USA"],"raw_orcid":"https://orcid.org/0000-0001-8137-6285","affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Purdue University , West Lafayette, IN, USA","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"Purdue Institute for Inflammation, Immunology, & Infectious Disease, Purdue University , West Lafayette, IN, USA","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"W. Harry Feinstone Department of Molecular Microbiology and Immunology, Johns Hopkins Malaria Research Institute, Johns Hopkins Bloomberg School of Public Health , Baltimore, MD, USA","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086503393","display_name":"Lev Gorenstein","orcid":"https://orcid.org/0000-0003-1877-009X"},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lev Gorenstein","raw_affiliation_strings":["Rosen Center for Advanced Computing, Purdue University , West Lafayette IN, USA"],"raw_orcid":"https://orcid.org/0000-0003-1877-009X","affiliations":[{"raw_affiliation_string":"Rosen Center for Advanced Computing, Purdue University , West Lafayette IN, USA","institution_ids":["https://openalex.org/I219193219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084564545","display_name":"Timothy T. Harkins","orcid":"https://orcid.org/0000-0001-9602-4653"},"institutions":[{"id":"https://openalex.org/I4210127875","display_name":"Nvidia (United States)","ror":"https://ror.org/03jdj4y14","country_code":"US","type":"company","lineage":["https://openalex.org/I4210127875"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Timothy T Harkins","raw_affiliation_strings":["NVIDIA , 2788 San Tomas, Santa Clara, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NVIDIA , 2788 San Tomas, Santa Clara, CA, USA","institution_ids":["https://openalex.org/I4210127875"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064640668","display_name":"Mehrzad Samadi","orcid":null},"institutions":[{"id":"https://openalex.org/I4210127875","display_name":"Nvidia (United States)","ror":"https://ror.org/03jdj4y14","country_code":"US","type":"company","lineage":["https://openalex.org/I4210127875"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mehrzad Samadi","raw_affiliation_strings":["NVIDIA , 2788 San Tomas, Santa Clara, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NVIDIA , 2788 San Tomas, Santa Clara, CA, USA","institution_ids":["https://openalex.org/I4210127875"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056682595","display_name":"Pankaj Vats","orcid":"https://orcid.org/0000-0001-8441-7732"},"institutions":[{"id":"https://openalex.org/I4210127875","display_name":"Nvidia (United States)","ror":"https://ror.org/03jdj4y14","country_code":"US","type":"company","lineage":["https://openalex.org/I4210127875"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pankaj Vats","raw_affiliation_strings":["NVIDIA , 2788 San Tomas, Santa Clara, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"NVIDIA , 2788 San Tomas, Santa Clara, CA, USA","institution_ids":["https://openalex.org/I4210127875"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5056682595","https://openalex.org/A5072143153"],"corresponding_institution_ids":["https://openalex.org/I145311948","https://openalex.org/I219193219","https://openalex.org/I4210127875"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.2151,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.78106105,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"23","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9944999814033508,"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"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9944999814033508,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9904999732971191,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9868999719619751,"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/malaria","display_name":"Malaria","score":0.6998429298400879},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.576772928237915},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5767529010772705},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5427129864692688},{"id":"https://openalex.org/keywords/infectious-disease","display_name":"Infectious disease (medical specialty)","score":0.5244465470314026},{"id":"https://openalex.org/keywords/plasmodium-falciparum","display_name":"Plasmodium falciparum","score":0.49775341153144836},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4735003113746643},{"id":"https://openalex.org/keywords/pandemic","display_name":"Pandemic","score":0.45736628770828247},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.45222359895706177},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4274165630340576},{"id":"https://openalex.org/keywords/transmission","display_name":"Transmission (telecommunications)","score":0.4169575572013855},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.35339683294296265},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.30433136224746704},{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.2936030626296997},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.18807277083396912},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1853330433368683},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13034167885780334},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.104529470205307}],"concepts":[{"id":"https://openalex.org/C2778048844","wikidata":"https://www.wikidata.org/wiki/Q12156","display_name":"Malaria","level":2,"score":0.6998429298400879},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.576772928237915},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5767529010772705},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5427129864692688},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.5244465470314026},{"id":"https://openalex.org/C2778371730","wikidata":"https://www.wikidata.org/wiki/Q311383","display_name":"Plasmodium falciparum","level":3,"score":0.49775341153144836},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4735003113746643},{"id":"https://openalex.org/C89623803","wikidata":"https://www.wikidata.org/wiki/Q12184","display_name":"Pandemic","level":5,"score":0.45736628770828247},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.45222359895706177},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4274165630340576},{"id":"https://openalex.org/C761482","wikidata":"https://www.wikidata.org/wiki/Q118093","display_name":"Transmission (telecommunications)","level":2,"score":0.4169575572013855},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.35339683294296265},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.30433136224746704},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.2936030626296997},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.18807277083396912},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1853330433368683},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13034167885780334},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.104529470205307},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":true},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003141","descriptor_name":"Communicable Diseases","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":"D008288","descriptor_name":"Malaria","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008288","descriptor_name":"Malaria","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008288","descriptor_name":"Malaria","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058873","descriptor_name":"Pandemics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbac314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac314","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35945154","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35945154","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:9487672","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9487672","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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbac314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbac314","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.8500000238418579,"display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":46,"referenced_works":["https://openalex.org/W1517077228","https://openalex.org/W1579111454","https://openalex.org/W2019851585","https://openalex.org/W2071890192","https://openalex.org/W2119180969","https://openalex.org/W2124985265","https://openalex.org/W2135697415","https://openalex.org/W2155943701","https://openalex.org/W2168133698","https://openalex.org/W2179577842","https://openalex.org/W2289977218","https://openalex.org/W2302703011","https://openalex.org/W2307970348","https://openalex.org/W2466857505","https://openalex.org/W2514285416","https://openalex.org/W2766207587","https://openalex.org/W2767318416","https://openalex.org/W2786610173","https://openalex.org/W2801980266","https://openalex.org/W2902271181","https://openalex.org/W2949631084","https://openalex.org/W2951273658","https://openalex.org/W2951331911","https://openalex.org/W2951479370","https://openalex.org/W2951816935","https://openalex.org/W2959086676","https://openalex.org/W2963818102","https://openalex.org/W2969271119","https://openalex.org/W2986984498","https://openalex.org/W2997069256","https://openalex.org/W3000646425","https://openalex.org/W3004318991","https://openalex.org/W3013041805","https://openalex.org/W3014080287","https://openalex.org/W3083993332","https://openalex.org/W3116015992","https://openalex.org/W3118986139","https://openalex.org/W3142929346","https://openalex.org/W3161034134","https://openalex.org/W3191429989","https://openalex.org/W3196531163","https://openalex.org/W4205511747","https://openalex.org/W4230252161","https://openalex.org/W4394666350","https://openalex.org/W6674561012","https://openalex.org/W6760435157"],"related_works":["https://openalex.org/W4367362025","https://openalex.org/W2115261803","https://openalex.org/W2108574175","https://openalex.org/W2347627655","https://openalex.org/W1477123016","https://openalex.org/W2386208584","https://openalex.org/W2226154164","https://openalex.org/W2368864186","https://openalex.org/W3122661184","https://openalex.org/W2371118503"],"abstract_inverted_index":{"As":[0],"recently":[1],"demonstrated":[2],"by":[3,98],"the":[4,83],"COVID-19":[5],"pandemic,":[6],"large-scale":[7],"pathogen":[8,57],"genomic":[9,58],"data":[10,28],"are":[11],"crucial":[12],"to":[13,24,34,87],"characterize":[14],"transmission":[15],"patterns":[16],"of":[17,65,73,82],"human":[18],"infectious":[19],"diseases.":[20],"Yet,":[21],"current":[22],"methods":[23],"process":[25],"raw":[26],"sequence":[27],"into":[29],"analysis-ready":[30],"variants":[31],"remain":[32],"slow":[33],"scale,":[35],"hampering":[36],"rapid":[37],"surveillance":[38],"efforts":[39],"and":[40,53,61,68,94,100],"epidemiological":[41],"investigations":[42],"for":[43,56],"disease":[44],"control.":[45],"Here,":[46],"we":[47],"introduce":[48],"an":[49,63],"accelerated,":[50],"scalable,":[51],"reproducible,":[52],"cost-effective":[54],"framework":[55,85],"variant":[59],"identification":[60],"present":[62],"evaluation":[64],"its":[66],"performance":[67,81],"accuracy":[69,106],"across":[70],"benchmark":[71],"datasets":[72],"Plasmodium":[74],"falciparum":[75],"malaria":[76],"genomes.":[77],"We":[78],"demonstrate":[79],"superior":[80],"GPU":[84],"relative":[86],"standard":[88],"pipelines":[89],"with":[90],"mean":[91],"execution":[92],"time":[93],"computational":[95],"costs":[96],"reduced":[97],"27\u00d7":[99],"4.6\u00d7,":[101],"respectively,":[102],"while":[103],"delivering":[104],"99.9%":[105],"at":[107],"enhanced":[108],"reproducibility.":[109]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":11},{"year":2023,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}