{"id":"https://openalex.org/W2533263508","doi":"https://doi.org/10.1057/s41273-016-0033-x","title":"Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons","display_name":"Load balancing for multi-threaded PDES of stochastic reaction-diffusion in neurons","publication_year":2016,"publication_date":"2016-10-25","ids":{"openalex":"https://openalex.org/W2533263508","doi":"https://doi.org/10.1057/s41273-016-0033-x","mag":"2533263508","pmid":"https://pubmed.ncbi.nlm.nih.gov/29225664"},"language":"en","primary_location":{"id":"doi:10.1057/s41273-016-0033-x","is_oa":false,"landing_page_url":"https://doi.org/10.1057/s41273-016-0033-x","pdf_url":null,"source":{"id":"https://openalex.org/S207180383","display_name":"Journal of Simulation","issn_l":"1747-7778","issn":["1747-7778","1747-7786","1774-7786"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547"],"host_organization_lineage_names":["Taylor & Francis"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Simulation","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5720372","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030895241","display_name":"Zhongwei Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhongwei Lin","raw_affiliation_strings":["College of Information System and ManagementNational University of Defense Technology Changsha China","State Key Laboratory of High Performance ComputingNational University of Defense Technology Changsha China"],"affiliations":[{"raw_affiliation_string":"College of Information System and ManagementNational University of Defense Technology Changsha China","institution_ids":["https://openalex.org/I170215575"]},{"raw_affiliation_string":"State Key Laboratory of High Performance ComputingNational University of Defense Technology Changsha China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045603103","display_name":"Carl Tropper","orcid":null},"institutions":[{"id":"https://openalex.org/I5023651","display_name":"McGill University","ror":"https://ror.org/01pxwe438","country_code":"CA","type":"education","lineage":["https://openalex.org/I5023651"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Carl Tropper","raw_affiliation_strings":["School of Computer ScienceMcGill University Montreal QC Canada"],"affiliations":[{"raw_affiliation_string":"School of Computer ScienceMcGill University Montreal QC Canada","institution_ids":["https://openalex.org/I5023651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109403093","display_name":"Yiping Yao","orcid":null},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yiping Yao","raw_affiliation_strings":["College of Information System and ManagementNational University of Defense Technology Changsha China"],"affiliations":[{"raw_affiliation_string":"College of Information System and ManagementNational University of Defense Technology Changsha China","institution_ids":["https://openalex.org/I170215575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025235631","display_name":"Robert A. McDougal","orcid":"https://orcid.org/0000-0001-6394-3127"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]},{"id":"https://openalex.org/I40253897","display_name":"University of New Haven","ror":"https://ror.org/00zm4rq24","country_code":"US","type":"education","lineage":["https://openalex.org/I40253897"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert A. Mcdougal","raw_affiliation_strings":["Department of NeurobiologyYale University New Haven CT USA"],"affiliations":[{"raw_affiliation_string":"Department of NeurobiologyYale University New Haven CT USA","institution_ids":["https://openalex.org/I40253897","https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013842655","display_name":"Mohammand Nazrul Ishlam Patoary","orcid":null},"institutions":[{"id":"https://openalex.org/I5023651","display_name":"McGill University","ror":"https://ror.org/01pxwe438","country_code":"CA","type":"education","lineage":["https://openalex.org/I5023651"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Mohammand Nazrul Ishlam Patoary","raw_affiliation_strings":["School of Computer ScienceMcGill University Montreal QC Canada"],"affiliations":[{"raw_affiliation_string":"School of Computer ScienceMcGill University Montreal QC Canada","institution_ids":["https://openalex.org/I5023651"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082122443","display_name":"William W. Lytton","orcid":"https://orcid.org/0000-0002-3727-2849"},"institutions":[{"id":"https://openalex.org/I181697535","display_name":"SUNY Downstate Health Sciences University","ror":"https://ror.org/0041qmd21","country_code":"US","type":"education","lineage":["https://openalex.org/I181697535"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William W. Lytton","raw_affiliation_strings":["SUNY Downstate Medical Center Brooklyn NY USA"],"affiliations":[{"raw_affiliation_string":"SUNY Downstate Medical Center Brooklyn NY USA","institution_ids":["https://openalex.org/I181697535"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027748067","display_name":"Michael L. Hines","orcid":"https://orcid.org/0000-0003-1830-7433"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]},{"id":"https://openalex.org/I40253897","display_name":"University of New Haven","ror":"https://ror.org/00zm4rq24","country_code":"US","type":"education","lineage":["https://openalex.org/I40253897"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael L. Hines","raw_affiliation_strings":["Department of NeurobiologyYale University New Haven CT USA"],"affiliations":[{"raw_affiliation_string":"Department of NeurobiologyYale University New Haven CT USA","institution_ids":["https://openalex.org/I40253897","https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5045603103"],"corresponding_institution_ids":["https://openalex.org/I5023651"],"apc_list":null,"apc_paid":null,"fwci":0.1743,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.65454736,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11","issue":"3","first_page":"267","last_page":"284"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9955999851226807,"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":0.9955999851226807,"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/T11178","display_name":"Receptor Mechanisms and Signaling","score":0.9936000108718872,"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/T10581","display_name":"Neural dynamics and brain function","score":0.9926999807357788,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8423662185668945},{"id":"https://openalex.org/keywords/diffusion","display_name":"Diffusion","score":0.5446961522102356},{"id":"https://openalex.org/keywords/reaction\u2013diffusion-system","display_name":"Reaction\u2013diffusion system","score":0.4869304895401001},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.355010449886322},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.33888494968414307},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.3228144645690918},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.32090651988983154},{"id":"https://openalex.org/keywords/thermodynamics","display_name":"Thermodynamics","score":0.09638115763664246},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09290674328804016},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08712515234947205}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8423662185668945},{"id":"https://openalex.org/C69357855","wikidata":"https://www.wikidata.org/wiki/Q163214","display_name":"Diffusion","level":2,"score":0.5446961522102356},{"id":"https://openalex.org/C121231716","wikidata":"https://www.wikidata.org/wiki/Q901210","display_name":"Reaction\u2013diffusion system","level":2,"score":0.4869304895401001},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.355010449886322},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.33888494968414307},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.3228144645690918},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.32090651988983154},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.09638115763664246},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09290674328804016},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08712515234947205}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1057/s41273-016-0033-x","is_oa":false,"landing_page_url":"https://doi.org/10.1057/s41273-016-0033-x","pdf_url":null,"source":{"id":"https://openalex.org/S207180383","display_name":"Journal of Simulation","issn_l":"1747-7778","issn":["1747-7778","1747-7786","1774-7786"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547"],"host_organization_lineage_names":["Taylor & Francis"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Simulation","raw_type":"journal-article"},{"id":"pmid:29225664","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29225664","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":"Journal of simulation : JOS","raw_type":null},{"id":"pmh:oai:RePEc:taf:tjsmxx:v:11:y:2017:i:3:p:267-284","is_oa":false,"landing_page_url":"http://hdl.handle.net/10.1057/s41273-016-0033-x","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:europepmc.org:5019956","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5720372","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5720372","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5720372","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Simul","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:5720372","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5720372","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Simul","raw_type":"Text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W602834913","https://openalex.org/W1168977942","https://openalex.org/W1481371813","https://openalex.org/W1557517019","https://openalex.org/W1963659409","https://openalex.org/W1964663180","https://openalex.org/W1966903828","https://openalex.org/W1979748495","https://openalex.org/W1982903250","https://openalex.org/W2002741066","https://openalex.org/W2010170987","https://openalex.org/W2024060531","https://openalex.org/W2041265238","https://openalex.org/W2043617261","https://openalex.org/W2054225000","https://openalex.org/W2057970414","https://openalex.org/W2061186544","https://openalex.org/W2070587796","https://openalex.org/W2070969771","https://openalex.org/W2085096867","https://openalex.org/W2086134353","https://openalex.org/W2087639123","https://openalex.org/W2088019372","https://openalex.org/W2088093088","https://openalex.org/W2094727853","https://openalex.org/W2096199252","https://openalex.org/W2102261910","https://openalex.org/W2115563423","https://openalex.org/W2118307028","https://openalex.org/W2123027306","https://openalex.org/W2130751117","https://openalex.org/W2148023570","https://openalex.org/W2153303191","https://openalex.org/W2155418451","https://openalex.org/W2162135116","https://openalex.org/W2164675184","https://openalex.org/W2186689726","https://openalex.org/W2385109307","https://openalex.org/W2599271158","https://openalex.org/W4214775604"],"related_works":["https://openalex.org/W2115140794","https://openalex.org/W2041120224","https://openalex.org/W2067902980","https://openalex.org/W1504320321","https://openalex.org/W4312275919","https://openalex.org/W2338293335","https://openalex.org/W2039378765","https://openalex.org/W2613115449","https://openalex.org/W2548529098","https://openalex.org/W2405661381"],"abstract_inverted_index":{"Stochastic":[0],"simulation":[1,37],"of":[2,16,38,51,77,89],"chemical":[3],"reactions":[4],"and":[5,40,53,66,82,133],"diffusion":[6,41],"in":[7,42],"a":[8,13,21,25,43,61,113],"neuron":[9],"helps":[10],"to":[11,56,84,104,130],"provide":[12],"realistic":[14],"view":[15],"the":[17,35,58,72,74,86,90,100,105,110,122],"molecular":[18],"dynamics":[19],"within":[20],"neuron.":[22,44],"We":[23],"developed":[24],"multi-threaded":[26],"PDES":[27],"simulator,":[28],"Neuron":[29],"Time":[30],"Warp-Multi":[31],"Thread,":[32],"suitable":[33,142],"for":[34,60,67,112,125,143],"stochastic":[36],"reaction":[39],"In":[45],"this":[46,94],"paper":[47],"we":[48],"make":[49],"use":[50],"Q-Learning":[52],"Simulated":[54],"Annealing":[55],"determine":[57,85],"parameters":[59],"dynamic":[62,68],"load":[63],"balancing":[64],"algorithm":[65],"window":[69],"control.":[70],"During":[71],"simulation,":[73],"runtime":[75],"statistics":[76],"each":[78],"thread":[79],"are":[80],"collected":[81],"used":[83],"execution":[87,123,147],"time":[88,124,148],"simulation.":[91],"Based":[92],"upon":[93],"assessment,":[95],"workload":[96],"is":[97,140],"migrated":[98],"from":[99],"most":[101,106],"overloaded":[102],"threads":[103],"under-load":[107],"ones.":[108],"As":[109],"results":[111],"calcium":[114],"wave":[115],"model":[116],"show,":[117],"both":[118],"approaches":[119],"can":[120],"improve":[121],"small":[126],"simulations":[127],"by":[128,149],"up":[129],"31%":[131],"(Q-Learning)":[132],"19%":[134],"(SA).":[135],"The":[136],"simulated":[137],"annealing":[138],"approach":[139],"more":[141],"larger":[144],"populations,":[145],"decreasing":[146],"41%.":[150]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
