{"id":"https://openalex.org/W1966353357","doi":"https://doi.org/10.1145/1839764.1839769","title":"On verifying Bio-PEPA models","display_name":"On verifying Bio-PEPA models","publication_year":2010,"publication_date":"2010-09-29","ids":{"openalex":"https://openalex.org/W1966353357","doi":"https://doi.org/10.1145/1839764.1839769","mag":"1966353357"},"language":"en","primary_location":{"id":"doi:10.1145/1839764.1839769","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1839764.1839769","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 8th International Conference on Computational Methods in Systems Biology","raw_type":"proceedings-article"},"type":"article","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/A5073529749","display_name":"Allan Clark","orcid":"https://orcid.org/0000-0003-2965-8941"},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Allan Clark","raw_affiliation_strings":["University of Edinburgh, UK"],"affiliations":[{"raw_affiliation_string":"University of Edinburgh, UK","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000114432","display_name":"Stephen Gilmore","orcid":"https://orcid.org/0000-0002-3657-989X"},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Stephen Gilmore","raw_affiliation_strings":["University of Edinburgh, UK"],"affiliations":[{"raw_affiliation_string":"University of Edinburgh, UK","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110310298","display_name":"Maria Luisa Guerriero","orcid":null},"institutions":[{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Maria Luisa Guerriero","raw_affiliation_strings":["Edinburgh University of Edinburgh, UK"],"affiliations":[{"raw_affiliation_string":"Edinburgh University of Edinburgh, UK","institution_ids":["https://openalex.org/I98677209"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108592838","display_name":"Peter Kemper","orcid":null},"institutions":[{"id":"https://openalex.org/I16285277","display_name":"William & Mary","ror":"https://ror.org/03hsf0573","country_code":"US","type":"education","lineage":["https://openalex.org/I16285277"]},{"id":"https://openalex.org/I267592682","display_name":"Williams (United States)","ror":"https://ror.org/007zhvp17","country_code":"US","type":"company","lineage":["https://openalex.org/I267592682"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peter Kemper","raw_affiliation_strings":["College of William and Mary, Williamsburg, VA"],"affiliations":[{"raw_affiliation_string":"College of William and Mary, Williamsburg, VA","institution_ids":["https://openalex.org/I16285277","https://openalex.org/I267592682"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5073529749"],"corresponding_institution_ids":["https://openalex.org/I98677209"],"apc_list":null,"apc_paid":null,"fwci":0.6609,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.67084632,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"23","last_page":"32"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9980999827384949,"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":0.9980999827384949,"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/T10142","display_name":"Formal Methods in Verification","score":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T11178","display_name":"Receptor Mechanisms and Signaling","score":0.9514999985694885,"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/computer-science","display_name":"Computer science","score":0.802472710609436},{"id":"https://openalex.org/keywords/trace","display_name":"TRACE (psycholinguistics)","score":0.7853111028671265},{"id":"https://openalex.org/keywords/process-calculus","display_name":"Process calculus","score":0.7485332489013672},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.5725997686386108},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.5675731301307678},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.5373759269714355},{"id":"https://openalex.org/keywords/analyser","display_name":"Analyser","score":0.5022649765014648},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4916594624519348},{"id":"https://openalex.org/keywords/model-checking","display_name":"Model checking","score":0.4123214781284332},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22874554991722107}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.802472710609436},{"id":"https://openalex.org/C75291252","wikidata":"https://www.wikidata.org/wiki/Q1315756","display_name":"TRACE (psycholinguistics)","level":2,"score":0.7853111028671265},{"id":"https://openalex.org/C161771561","wikidata":"https://www.wikidata.org/wiki/Q1970286","display_name":"Process calculus","level":2,"score":0.7485332489013672},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.5725997686386108},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.5675731301307678},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.5373759269714355},{"id":"https://openalex.org/C26834552","wikidata":"https://www.wikidata.org/wiki/Q3275846","display_name":"Analyser","level":2,"score":0.5022649765014648},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4916594624519348},{"id":"https://openalex.org/C110251889","wikidata":"https://www.wikidata.org/wiki/Q1569697","display_name":"Model checking","level":2,"score":0.4123214781284332},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22874554991722107},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/1839764.1839769","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1839764.1839769","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 8th International Conference on Computational Methods in Systems Biology","raw_type":"proceedings-article"},{"id":"pmh:oai:pure.ed.ac.uk:publications/dc96e233-801e-4b78-b77f-fbdedd181487","is_oa":false,"landing_page_url":"http://dl.acm.org/citation.cfm?doid=1839764.1839769","pdf_url":null,"source":{"id":"https://openalex.org/S4306400321","display_name":"Edinburgh Research Explorer (University of Edinburgh)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98677209","host_organization_name":"University of Edinburgh","host_organization_lineage":["https://openalex.org/I98677209"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G14264600","display_name":"SIGNAL: Stochastic process algebra for biochemical signalling pathway analysis","funder_award_id":"EP/E031439/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G1947253272","display_name":null,"funder_award_id":"EP/E031439/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G2160003213","display_name":null,"funder_award_id":"BB/D019621/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1514014274","https://openalex.org/W1529898704","https://openalex.org/W1548496470","https://openalex.org/W1591890109","https://openalex.org/W1813686880","https://openalex.org/W1964012101","https://openalex.org/W1971135164","https://openalex.org/W1983350265","https://openalex.org/W2011835017","https://openalex.org/W2030207203","https://openalex.org/W2128202785","https://openalex.org/W2145002614","https://openalex.org/W2148895036","https://openalex.org/W2158458407","https://openalex.org/W2164177637","https://openalex.org/W2911676722","https://openalex.org/W2913825055","https://openalex.org/W3148693409","https://openalex.org/W4256259619"],"related_works":["https://openalex.org/W1904432136","https://openalex.org/W2039934116","https://openalex.org/W1987186610","https://openalex.org/W2005457983","https://openalex.org/W2096369514","https://openalex.org/W2092836002","https://openalex.org/W1975208120","https://openalex.org/W2047029026","https://openalex.org/W2116938113","https://openalex.org/W1999639011"],"abstract_inverted_index":{"Verifying":[0],"that":[1,29,49],"a":[2,25,41,89,92],"computational":[3],"model":[4,8,90],"implements":[5],"the":[6,36,46,53,66,80,86],"conceptual":[7],"of":[9,27,68,73,91],"some":[10],"dynamic":[11,71],"biological":[12],"phenomena":[13],"is":[14],"an":[15],"important":[16],"yet":[17],"non-trivial":[18],"task.":[19],"In":[20,56],"this":[21,32],"paper,":[22],"we":[23,58],"discuss":[24],"variety":[26],"steps":[28,48],"contribute":[30],"to":[31],"verification":[33,47],"process,":[34],"using":[35,79],"Bio-PEPA":[37,54],"process":[38],"algebra":[39],"as":[40],"modelling":[42],"language":[43],"and":[44,70],"describing":[45],"are":[50],"supported":[51],"by":[52],"tool.":[55],"particular,":[57],"elaborate":[59],"on":[60,65],"both":[61],"static":[62],"analysis":[63,72],"based":[64],"structure":[67],"models":[69],"generated":[74],"stochastic":[75],"simulation":[76],"traces":[77],"performed":[78],"Traviando":[81],"trace":[82],"analyser.":[83],"We":[84],"illustrate":[85],"approach":[87],"with":[88],"JAK/STAT":[93],"signalling":[94],"pathway.":[95]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
