{"id":"https://openalex.org/W2611831130","doi":"https://doi.org/10.1109/wsc.2014.7020120","title":"Investigating the speedup of systems biology simulation using the SZTAKI Desktop Grid","display_name":"Investigating the speedup of systems biology simulation using the SZTAKI Desktop Grid","publication_year":2014,"publication_date":"2014-12-01","ids":{"openalex":"https://openalex.org/W2611831130","doi":"https://doi.org/10.1109/wsc.2014.7020120","mag":"2611831130"},"language":"en","primary_location":{"id":"doi:10.1109/wsc.2014.7020120","is_oa":false,"landing_page_url":"https://doi.org/10.1109/wsc.2014.7020120","pdf_url":null,"source":{"id":"https://openalex.org/S4363608779","display_name":"Proceedings of the Winter Simulation Conference 2014","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":"Proceedings of the Winter Simulation Conference 2014","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://bura.brunel.ac.uk/bitstream/2438/14501/3/FullText.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044628664","display_name":"Simon J. E. Taylor","orcid":"https://orcid.org/0000-0001-8252-0189"},"institutions":[{"id":"https://openalex.org/I59433898","display_name":"Brunel University of London","ror":"https://ror.org/00dn4t376","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I59433898"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Simon J. E. Taylor","raw_affiliation_strings":["Modelling & Simulation Group, Brunel University, Uxbridge, UK"],"affiliations":[{"raw_affiliation_string":"Modelling & Simulation Group, Brunel University, Uxbridge, UK","institution_ids":["https://openalex.org/I59433898"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113807711","display_name":"Mohammadmersad Ghorbani","orcid":null},"institutions":[{"id":"https://openalex.org/I59433898","display_name":"Brunel University of London","ror":"https://ror.org/00dn4t376","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I59433898"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mohammadmersad Ghorbani","raw_affiliation_strings":["Modelling & Simulation Group, Brunel University, Uxbridge, UK"],"affiliations":[{"raw_affiliation_string":"Modelling & Simulation Group, Brunel University, Uxbridge, UK","institution_ids":["https://openalex.org/I59433898"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071620359","display_name":"Navonil Mustafee","orcid":"https://orcid.org/0000-0002-2204-8924"},"institutions":[{"id":"https://openalex.org/I23923803","display_name":"University of Exeter","ror":"https://ror.org/03yghzc09","country_code":"GB","type":"education","lineage":["https://openalex.org/I23923803"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Navonil Mustafee","raw_affiliation_strings":["Centre for Innovation and Service Research, University of Exeter Business School, Exeter, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Innovation and Service Research, University of Exeter Business School, Exeter, UK","institution_ids":["https://openalex.org/I23923803"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090306567","display_name":"Tam\u00e1s Kiss","orcid":"https://orcid.org/0000-0002-3241-633X"},"institutions":[{"id":"https://openalex.org/I23923803","display_name":"University of Exeter","ror":"https://ror.org/03yghzc09","country_code":"GB","type":"education","lineage":["https://openalex.org/I23923803"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Tamas Kiss","raw_affiliation_strings":["Centre for Innovation and Service Research, University of Exeter Business School, Exeter, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Innovation and Service Research, University of Exeter Business School, Exeter, UK","institution_ids":["https://openalex.org/I23923803"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046379262","display_name":"P\u00e9ter Borsody","orcid":null},"institutions":[{"id":"https://openalex.org/I94951947","display_name":"University of Westminster","ror":"https://ror.org/04ycpbx82","country_code":"GB","type":"education","lineage":["https://openalex.org/I94951947"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Peter Borsody","raw_affiliation_strings":["Centre for Parallel Computing, University of Westminster, London, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Parallel Computing, University of Westminster, London, UK","institution_ids":["https://openalex.org/I94951947"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022070811","display_name":"Annette Payne","orcid":"https://orcid.org/0000-0002-2009-0141"},"institutions":[{"id":"https://openalex.org/I59433898","display_name":"Brunel University of London","ror":"https://ror.org/00dn4t376","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I59433898"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Annette Payne","raw_affiliation_strings":["Centre for Systems and Synthetic Biology, Brunel University, Uxbridge, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Systems and Synthetic Biology, Brunel University, Uxbridge, UK","institution_ids":["https://openalex.org/I59433898"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5102913036","display_name":"David Gilbert","orcid":"https://orcid.org/0000-0002-8872-4294"},"institutions":[{"id":"https://openalex.org/I59433898","display_name":"Brunel University of London","ror":"https://ror.org/00dn4t376","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I59433898"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David Gilbert","raw_affiliation_strings":["Centre for Systems and Synthetic Biology, Brunel University, Uxbridge, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Systems and Synthetic Biology, Brunel University, Uxbridge, UK","institution_ids":["https://openalex.org/I59433898"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5044628664"],"corresponding_institution_ids":["https://openalex.org/I59433898"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.26221692,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"63","issue":null,"first_page":"2774","last_page":"2785"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.984499990940094,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9724000096321106,"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/speedup","display_name":"Speedup","score":0.8269643783569336},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7870877981185913},{"id":"https://openalex.org/keywords/porting","display_name":"Porting","score":0.7709686756134033},{"id":"https://openalex.org/keywords/grid","display_name":"Grid","score":0.7026753425598145},{"id":"https://openalex.org/keywords/grid-computing","display_name":"Grid computing","score":0.6516616344451904},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.543738603591919},{"id":"https://openalex.org/keywords/embarrassingly-parallel","display_name":"Embarrassingly parallel","score":0.5276461839675903},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5084694623947144},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.48084768652915955},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3937838077545166},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.32736480236053467},{"id":"https://openalex.org/keywords/parallel-algorithm","display_name":"Parallel algorithm","score":0.213344544172287}],"concepts":[{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.8269643783569336},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7870877981185913},{"id":"https://openalex.org/C106251023","wikidata":"https://www.wikidata.org/wiki/Q851989","display_name":"Porting","level":3,"score":0.7709686756134033},{"id":"https://openalex.org/C187691185","wikidata":"https://www.wikidata.org/wiki/Q2020720","display_name":"Grid","level":2,"score":0.7026753425598145},{"id":"https://openalex.org/C70429105","wikidata":"https://www.wikidata.org/wiki/Q249999","display_name":"Grid computing","level":3,"score":0.6516616344451904},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.543738603591919},{"id":"https://openalex.org/C126909462","wikidata":"https://www.wikidata.org/wiki/Q5369501","display_name":"Embarrassingly parallel","level":3,"score":0.5276461839675903},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5084694623947144},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.48084768652915955},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3937838077545166},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.32736480236053467},{"id":"https://openalex.org/C120373497","wikidata":"https://www.wikidata.org/wiki/Q1087987","display_name":"Parallel algorithm","level":2,"score":0.213344544172287},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/wsc.2014.7020120","is_oa":false,"landing_page_url":"https://doi.org/10.1109/wsc.2014.7020120","pdf_url":null,"source":{"id":"https://openalex.org/S4363608779","display_name":"Proceedings of the Winter Simulation Conference 2014","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":"Proceedings of the Winter Simulation Conference 2014","raw_type":"proceedings-article"},{"id":"pmh:oai:v-lib-bura1.brunel.ac.uk:2438/14501","is_oa":true,"landing_page_url":"https://bura.brunel.ac.uk/handle/2438/14501","pdf_url":"http://bura.brunel.ac.uk/bitstream/2438/14501/3/FullText.pdf","source":{"id":"https://openalex.org/S4306401473","display_name":"Brunel University Research Archive (BURA) (Brunel University London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I59433898","host_organization_name":"Brunel University of London","host_organization_lineage":["https://openalex.org/I59433898"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proceedings of the Winter Simulation Conference 2014","raw_type":"Article"},{"id":"pmh:oai:westminsterresearch.westminster.ac.uk:971z1","is_oa":false,"landing_page_url":"https://doi.org/10.1109/WSC.2014.7020120","pdf_url":null,"source":{"id":"https://openalex.org/S4306400277","display_name":"WestminsterResearch (University of Westminster)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I94951947","host_organization_name":"University of Westminster","host_organization_lineage":["https://openalex.org/I94951947"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"conference-paper"}],"best_oa_location":{"id":"pmh:oai:v-lib-bura1.brunel.ac.uk:2438/14501","is_oa":true,"landing_page_url":"https://bura.brunel.ac.uk/handle/2438/14501","pdf_url":"http://bura.brunel.ac.uk/bitstream/2438/14501/3/FullText.pdf","source":{"id":"https://openalex.org/S4306401473","display_name":"Brunel University Research Archive (BURA) (Brunel University London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I59433898","host_organization_name":"Brunel University of London","host_organization_lineage":["https://openalex.org/I59433898"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proceedings of the Winter Simulation Conference 2014","raw_type":"Article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.5,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2611831130.pdf","grobid_xml":"https://content.openalex.org/works/W2611831130.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W59973418","https://openalex.org/W1510060170","https://openalex.org/W1772753304","https://openalex.org/W1964504843","https://openalex.org/W1965853004","https://openalex.org/W1978618328","https://openalex.org/W1979259299","https://openalex.org/W1979653769","https://openalex.org/W1982609920","https://openalex.org/W2000169682","https://openalex.org/W2028706992","https://openalex.org/W2049379742","https://openalex.org/W2077272676","https://openalex.org/W2084162120","https://openalex.org/W2093868559","https://openalex.org/W2096595244","https://openalex.org/W2103363198","https://openalex.org/W2104991267","https://openalex.org/W2124253549","https://openalex.org/W2154010459","https://openalex.org/W2166777378","https://openalex.org/W2169826465","https://openalex.org/W3141521533","https://openalex.org/W3148640261","https://openalex.org/W4232223184"],"related_works":["https://openalex.org/W1662038552","https://openalex.org/W3021568819","https://openalex.org/W49162573","https://openalex.org/W1974375730","https://openalex.org/W2188069249","https://openalex.org/W1984070451","https://openalex.org/W2143819726","https://openalex.org/W2181965243","https://openalex.org/W1566623208","https://openalex.org/W1970113381"],"abstract_inverted_index":{"Systems":[0],"biology":[1,18,105],"studies":[2],"the":[3,84,102,117],"complex":[4],"interactions":[5],"of":[6,51,68,83,100,116],"biological":[7],"and":[8,33],"biochemical":[9],"systems":[10,104],"rather":[11],"than":[12],"their":[13,45],"individual":[14,30],"molecular":[15],"components.":[16],"System":[17],"simulations":[19],"can":[20],"be":[21],"embarrassingly":[22],"parallel":[23,38],"jobs":[24],"that":[25,62],"have":[26],"no":[27],"dependency":[28],"among":[29],"simulation":[31,115],"instances,":[32],"thus":[34],"lend":[35],"themselves":[36],"to":[37,43,64,70,89,108],"execution":[39,47],"over":[40],"distributed":[41,53],"resources":[42,54],"reduce":[44],"overall":[46],"time.":[48],"One":[49],"example":[50],"such":[52],"is":[55],"a":[56,80,114],"Desktop":[57,76,93],"Grid":[58,77],"for":[59],"Volunteer":[60],"Computing":[61],"aims":[63],"use":[65],"vast":[66],"numbers":[67],"computers":[69],"support":[71],"scientific":[72],"applications.":[73],"The":[74],"SZTAKI":[75],"(SZDG)":[78],"uses":[79],"modified":[81],"form":[82],"volunteer":[85],"computing":[86],"software":[87],"BOINC":[88],"implement":[90],"an":[91],"institution-wide":[92],"Grid.":[94],"This":[95],"paper":[96],"reports":[97,122],"on":[98,123],"experiences":[99],"porting":[101],"SIMAP":[103],"ODE":[106],"simulator":[107],"SZDG.":[109],"A":[110],"case":[111],"study":[112],"using":[113],"mammalian":[118],"ErbB":[119],"signaling":[120],"pathway":[121],"significant":[124],"speedup.":[125]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
