{"id":"https://openalex.org/W2079039822","doi":"https://doi.org/10.1145/2330784.2330964","title":"Estimating reaction constants in stochastic biological systems with a multi-swarm PSO running on GPUs","display_name":"Estimating reaction constants in stochastic biological systems with a multi-swarm PSO running on GPUs","publication_year":2012,"publication_date":"2012-07-07","ids":{"openalex":"https://openalex.org/W2079039822","doi":"https://doi.org/10.1145/2330784.2330964","mag":"2079039822"},"language":"en","primary_location":{"id":"doi:10.1145/2330784.2330964","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2330784.2330964","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 14th annual conference companion on Genetic and evolutionary computation","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/A5043650939","display_name":"Marco S. Nobile","orcid":"https://orcid.org/0000-0002-7692-7203"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Marco S. Nobile","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072712347","display_name":"Daniela Besozzi","orcid":"https://orcid.org/0000-0001-5532-3059"},"institutions":[{"id":"https://openalex.org/I189158943","display_name":"University of Milan","ror":"https://ror.org/00wjc7c48","country_code":"IT","type":"education","lineage":["https://openalex.org/I189158943"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Daniela Besozzi","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano, Milano, Italy","institution_ids":["https://openalex.org/I189158943"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013723473","display_name":"Paolo Cazzaniga","orcid":"https://orcid.org/0000-0001-7780-0434"},"institutions":[{"id":"https://openalex.org/I11039511","display_name":"University of Bergamo","ror":"https://ror.org/02mbd5571","country_code":"IT","type":"education","lineage":["https://openalex.org/I11039511"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paolo Cazzaniga","raw_affiliation_strings":["Universit\u00e0 degli Studi di Bergamo, Bergamo, Italy","Universita degli studi di Bergamo, Bergamo, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Bergamo, Bergamo, Italy","institution_ids":["https://openalex.org/I11039511"]},{"raw_affiliation_string":"Universita degli studi di Bergamo, Bergamo, Italy","institution_ids":["https://openalex.org/I11039511"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073163964","display_name":"Giancarlo Mauri","orcid":"https://orcid.org/0000-0003-3520-4022"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giancarlo Mauri","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065568541","display_name":"Dario Pescini","orcid":"https://orcid.org/0000-0002-3090-4823"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Dario Pescini","raw_affiliation_strings":["Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e0 degli Studi di Milano-Bicocca, Milano, Italy","institution_ids":["https://openalex.org/I66752286"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":6.6821,"has_fulltext":false,"cited_by_count":22,"citation_normalized_percentile":{"value":0.96496552,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"1421","last_page":"1422"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9980000257492065,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.996399998664856,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/swarm-behaviour","display_name":"Swarm behaviour","score":0.6845534443855286},{"id":"https://openalex.org/keywords/particle-swarm-optimization","display_name":"Particle swarm optimization","score":0.6331695318222046},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5967971682548523},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.3932214081287384},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.33496731519699097},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.285276859998703},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.263361394405365},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.21131065487861633}],"concepts":[{"id":"https://openalex.org/C181335050","wikidata":"https://www.wikidata.org/wiki/Q14915018","display_name":"Swarm behaviour","level":2,"score":0.6845534443855286},{"id":"https://openalex.org/C85617194","wikidata":"https://www.wikidata.org/wiki/Q2072794","display_name":"Particle swarm optimization","level":2,"score":0.6331695318222046},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5967971682548523},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.3932214081287384},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.33496731519699097},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.285276859998703},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.263361394405365},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.21131065487861633}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/2330784.2330964","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2330784.2330964","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 14th annual conference companion on Genetic and evolutionary computation","raw_type":"proceedings-article"},{"id":"pmh:oai:aisberg.unibg.it:10446/28347","is_oa":false,"landing_page_url":"http://hdl.handle.net/10446/28347","pdf_url":null,"source":{"id":"https://openalex.org/S4377196347","display_name":"Aisberg (University of Bergamo)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I11039511","host_organization_name":"University of Bergamo","host_organization_lineage":["https://openalex.org/I11039511"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:boa.unimib.it:10281/60873","is_oa":false,"landing_page_url":"http://hdl.handle.net/10281/60873","pdf_url":null,"source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/conferenceObject"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","score":0.4000000059604645,"display_name":"Affordable and clean energy"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":5,"referenced_works":["https://openalex.org/W178214986","https://openalex.org/W2011432832","https://openalex.org/W2152195021","https://openalex.org/W2167543722","https://openalex.org/W2170484057"],"related_works":["https://openalex.org/W1601689643","https://openalex.org/W1975627211","https://openalex.org/W2028175972","https://openalex.org/W58882117","https://openalex.org/W3175773280","https://openalex.org/W2491247131","https://openalex.org/W2111857118","https://openalex.org/W4311367510","https://openalex.org/W1990169213","https://openalex.org/W2164817374"],"abstract_inverted_index":{"We":[0],"present":[1],"a":[2,33,55],"parameter":[3],"estimation":[4,20],"method,":[5],"based":[6],"on":[7],"particle":[8],"swarm":[9],"optimization":[10],"(PSO)":[11],"and":[12],"embedding":[13],"the":[14,18,49,70],"tau-leaping":[15],"algorithm,":[16],"for":[17,48,65],"efficient":[19],"of":[21,27,35,38,51,58],"reaction":[22],"constants":[23],"in":[24,42],"stochastic":[25],"models":[26],"biological":[28],"systems,":[29],"using":[30],"as":[31],"target":[32],"set":[34],"discrete-time":[36],"measurements":[37],"molecular":[39],"amounts":[40],"sampled":[41],"different":[43],"experimental":[44],"conditions.":[45],"To":[46],"account":[47],"multiplicity":[50],"data,":[52],"we":[53],"consider":[54],"multi-swarm":[56],"formulation":[57],"PSO.":[59],"The":[60],"whole":[61],"method":[62],"is":[63],"developed":[64],"GPGPU":[66],"architecture":[67],"to":[68],"reduce":[69],"computational":[71],"costs.":[72]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":4}],"updated_date":"2026-07-30T17:31:21.811387","created_date":"2025-10-10T00:00:00"}
