{"id":"https://openalex.org/W4313527360","doi":"https://doi.org/10.1109/bibm55620.2022.9995159","title":"UISS-GPU: Accelerated In-Silico Tuberculosis Vaccine Trials Using FLAME GPU","display_name":"UISS-GPU: Accelerated In-Silico Tuberculosis Vaccine Trials Using FLAME GPU","publication_year":2022,"publication_date":"2022-12-06","ids":{"openalex":"https://openalex.org/W4313527360","doi":"https://doi.org/10.1109/bibm55620.2022.9995159"},"language":"en","primary_location":{"id":"doi:10.1109/bibm55620.2022.9995159","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm55620.2022.9995159","pdf_url":null,"source":{"id":"https://openalex.org/S4363607730","display_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5011413276","display_name":"Paul Richmond","orcid":"https://orcid.org/0000-0002-4657-5518"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Paul Richmond","raw_affiliation_strings":["University of Sheffield,Sheffield,United Kingdom","University of Sheffield, Sheffield, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Sheffield,Sheffield,United Kingdom","institution_ids":["https://openalex.org/I91136226"]},{"raw_affiliation_string":"University of Sheffield, Sheffield, United Kingdom","institution_ids":["https://openalex.org/I91136226"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103162288","display_name":"Matthew Leach","orcid":"https://orcid.org/0000-0002-8901-5609"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Matthew Leach","raw_affiliation_strings":["University of Sheffield,Sheffield,United Kingdom","University of Sheffield, Sheffield, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Sheffield,Sheffield,United Kingdom","institution_ids":["https://openalex.org/I91136226"]},{"raw_affiliation_string":"University of Sheffield, Sheffield, United Kingdom","institution_ids":["https://openalex.org/I91136226"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039912522","display_name":"Peter Heywood","orcid":"https://orcid.org/0000-0001-9277-8394"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Peter Heywood","raw_affiliation_strings":["University of Sheffield,Sheffield,United Kingdom","University of Sheffield, Sheffield, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Sheffield,Sheffield,United Kingdom","institution_ids":["https://openalex.org/I91136226"]},{"raw_affiliation_string":"University of Sheffield, Sheffield, United Kingdom","institution_ids":["https://openalex.org/I91136226"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044340074","display_name":"Francesco Pappalardo","orcid":"https://orcid.org/0000-0003-1668-3320"},"institutions":[{"id":"https://openalex.org/I39063666","display_name":"University of Catania","ror":"https://ror.org/03a64bh57","country_code":"IT","type":"education","lineage":["https://openalex.org/I39063666"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Francesco Pappalardo","raw_affiliation_strings":["University of Catania"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Catania","institution_ids":["https://openalex.org/I39063666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004880055","display_name":"Giulia Russo","orcid":"https://orcid.org/0000-0001-6616-7856"},"institutions":[{"id":"https://openalex.org/I39063666","display_name":"University of Catania","ror":"https://ror.org/03a64bh57","country_code":"IT","type":"education","lineage":["https://openalex.org/I39063666"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giulia Russo","raw_affiliation_strings":["University of Catania"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Catania","institution_ids":["https://openalex.org/I39063666"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003874484","display_name":"Marzio Pennisi","orcid":"https://orcid.org/0000-0003-0231-7653"},"institutions":[{"id":"https://openalex.org/I123338534","display_name":"Universit\u00e0 degli Studi del Piemonte Orientale \u201cAmedeo Avogadro\u201d","ror":"https://ror.org/04387x656","country_code":"IT","type":"education","lineage":["https://openalex.org/I123338534"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Marzio Pennisi","raw_affiliation_strings":["Amedeo Avogadro University of Eastern Piedmont"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Amedeo Avogadro University of Eastern Piedmont","institution_ids":["https://openalex.org/I123338534"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.2044741,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"10","issue":null,"first_page":"3562","last_page":"3568"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9908000230789185,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9908000230789185,"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/T11829","display_name":"Mathematical Biology Tumor Growth","score":0.9897000193595886,"subfield":{"id":"https://openalex.org/subfields/2611","display_name":"Modeling and Simulation"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10482","display_name":"Mathematical and Theoretical Epidemiology and Ecology Models","score":0.9853000044822693,"subfield":{"id":"https://openalex.org/subfields/2739","display_name":"Public Health, Environmental and Occupational Health"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7524970769882202},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.6785553693771362},{"id":"https://openalex.org/keywords/supercomputer","display_name":"Supercomputer","score":0.5357778072357178},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5019807815551758},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.460247665643692},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.41696053743362427},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.38399970531463623},{"id":"https://openalex.org/keywords/simulation","display_name":"Simulation","score":0.35615402460098267},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.34363874793052673}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7524970769882202},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.6785553693771362},{"id":"https://openalex.org/C83283714","wikidata":"https://www.wikidata.org/wiki/Q121117","display_name":"Supercomputer","level":2,"score":0.5357778072357178},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5019807815551758},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.460247665643692},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.41696053743362427},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.38399970531463623},{"id":"https://openalex.org/C44154836","wikidata":"https://www.wikidata.org/wiki/Q45045","display_name":"Simulation","level":1,"score":0.35615402460098267},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.34363874793052673},{"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:10.1109/bibm55620.2022.9995159","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm55620.2022.9995159","pdf_url":null,"source":{"id":"https://openalex.org/S4363607730","display_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.8500000238418579,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W2016111840","https://openalex.org/W2102978278","https://openalex.org/W2105218945","https://openalex.org/W2110518406","https://openalex.org/W2124677924","https://openalex.org/W2158327192","https://openalex.org/W2172275426","https://openalex.org/W2346839593","https://openalex.org/W2756268336","https://openalex.org/W2771566192","https://openalex.org/W2806795687","https://openalex.org/W2994705677","https://openalex.org/W3000380019","https://openalex.org/W3112174179","https://openalex.org/W4312601511","https://openalex.org/W6675720589"],"related_works":["https://openalex.org/W2983282793","https://openalex.org/W2317245370","https://openalex.org/W4249323025","https://openalex.org/W198851386","https://openalex.org/W2030310580","https://openalex.org/W947442053","https://openalex.org/W1980160788","https://openalex.org/W1973046741","https://openalex.org/W2148915962","https://openalex.org/W2283866686"],"abstract_inverted_index":{"The":[0,121,173],"Universal":[1],"Immune":[2],"System":[3],"Simulator":[4],"(UISS)":[5],"is":[6],"a":[7,35,116,186,191,202,216],"computational":[8,122],"framework":[9],"based":[10],"on":[11],"agent-based":[12,150],"modelling":[13,57],"(ABM)":[14],"paradigm":[15],"that":[16,209],"has":[17,34,74],"been":[18,75],"specifically":[19],"developed":[20],"for":[21,182,190],"simulating":[22,195],"the":[23,46,68,85,89,92,140,165,206],"immune":[24,86],"system":[25],"behaviour":[26],"in":[27],"presence":[28],"of":[29,38,48,91,95,124,134,142,159,167,188,205,218,233],"diseases":[30],"and":[31,51,64,81,101,231],"treatments.":[32],"It":[33],"long":[36],"history":[37],"development,":[39],"ranging":[40],"from":[41],"its":[42,82],"initial":[43],"applications":[44],"into":[45],"field":[47],"tumor":[49],"immunology":[50],"then":[52],"moving":[53],"towards":[54],"wide":[55,117],"disease":[56],"scenarios":[58],"such":[59,98,227],"as":[60,99,228],"influenza,":[61],"Multiple":[62],"Sclerosis":[63],"atherosclerosis.":[65],"Recently,":[66],"inside":[67],"STriTuVaD":[69],"H2020":[70],"EU":[71],"project,":[72],"it":[73],"specialized":[76],"to":[77,111,144,213,224],"simulate":[78],"tuberculosis":[79,193],"dynamics":[80],"interaction":[83],"with":[84,162,185],"system,":[87],"including":[88],"efficacy":[90],"combined":[93,174],"action":[94],"various":[96],"treatments":[97],"isoniazid":[100],"novel":[102],"vaccines.":[103],"TB":[104],"simulation":[105,166],"entitles":[106],"large":[107,126,183],"scale":[108,127],"(e.g.,":[109],"tissue":[110],"organ":[112],"scale)":[113],"simulations":[114,128],"over":[115],"digital":[118],"population":[119],"cohort.":[120],"costs":[123],"running":[125],"are":[129],"prohibitive":[130],"using":[131],"traditional":[132],"forms":[133],"CPU":[135],"simulation.":[136],"This":[137],"paper":[138],"considers":[139],"use":[141],"parallel":[143],"gpu-based":[145],"computing":[146],"approaches":[147],"via":[148],"an":[149],"domain":[151],"independent":[152],"complex":[153,170],"systems":[154],"simulator,":[155],"FLAME":[156,160,198],"GPU.":[157],"Integration":[158],"GPU":[161,199],"UISS":[163],"enables":[164],"larger,":[168],"more":[169],"problem":[171],"domains.":[172],"UISS-FLAMEGPU":[175],"simulator":[176],"provides":[177],"vastly":[178],"increased":[179],"performance":[180],"characteristics":[181],"problems,":[184],"speedup":[187],"4.22x":[189],"typical":[192],"model":[194,217],"128":[196],"microlitres.":[197],"abstracts":[200],"away":[201],"significant":[203],"portion":[204],"normal":[207],"programming":[208],"would":[210],"be":[211],"required":[212],"effectively":[214],"parallelise":[215],"this":[219],"complexity.":[220],"Adaptations":[221],"were":[222],"made":[223],"increase":[225],"performance,":[226],"message":[229],"mutation":[230],"parallelisation":[232],"certain":[234],"algorithms.":[235]},"counts_by_year":[],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}
