{"id":"https://openalex.org/W2042001106","doi":"https://doi.org/10.1016/j.entcs.2012.05.015","title":"Formal Cellular Machinery","display_name":"Formal Cellular Machinery","publication_year":2012,"publication_date":"2012-06-01","ids":{"openalex":"https://openalex.org/W2042001106","doi":"https://doi.org/10.1016/j.entcs.2012.05.015","mag":"2042001106"},"language":"en","primary_location":{"id":"doi:10.1016/j.entcs.2012.05.015","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.entcs.2012.05.015","pdf_url":null,"source":{"id":"https://openalex.org/S50368787","display_name":"Electronic Notes in Theoretical Computer Science","issn_l":"1571-0661","issn":["1571-0661"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Electronic Notes in Theoretical Computer Science","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://doi.org/10.1016/j.entcs.2012.05.015","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010565963","display_name":"Troels C. Damgaard","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Troels C. Damgaard","raw_affiliation_strings":["Edlund A/S, Denmark","Edlund A/S, Denmark#TAB#"],"affiliations":[{"raw_affiliation_string":"Edlund A/S, Denmark","institution_ids":[]},{"raw_affiliation_string":"Edlund A/S, Denmark#TAB#","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074591375","display_name":"Espen H\u00f8jsgaard","orcid":null},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I83467386","display_name":"IT University of Copenhagen","ror":"https://ror.org/02309jg23","country_code":"DK","type":"education","lineage":["https://openalex.org/I83467386"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Espen H\u00f8jsgaard","raw_affiliation_strings":["IT University Copenhagen, PLS group, Denmark","IT University Copenhagen, PLS group, Denmark#TAB#"],"affiliations":[{"raw_affiliation_string":"IT University Copenhagen, PLS group, Denmark","institution_ids":["https://openalex.org/I83467386"]},{"raw_affiliation_string":"IT University Copenhagen, PLS group, Denmark#TAB#","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077182970","display_name":"Jean Krivine","orcid":"https://orcid.org/0000-0001-7261-7462"},"institutions":[{"id":"https://openalex.org/I169173203","display_name":"D\u00e9l\u00e9gation Paris 7","ror":"https://ror.org/00bw5n526","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I169173203"]},{"id":"https://openalex.org/I4210091437","display_name":"Sorbonne Paris Cit\u00e9","ror":"https://ror.org/001z21q04","country_code":"FR","type":"other","lineage":["https://openalex.org/I4210091437"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Jean Krivine","raw_affiliation_strings":["Univ Paris Diderot, Sorbonne Paris Cit\u00e9, Laboratoire PPS, UMR 7126, F-75205 Paris, France","Univ Paris Diderot, Sorbonne Paris Cit\u00e9, Laboratoire PPS, UMR 7126, F-75205 Paris, France#TAB#"],"affiliations":[{"raw_affiliation_string":"Univ Paris Diderot, Sorbonne Paris Cit\u00e9, Laboratoire PPS, UMR 7126, F-75205 Paris, France","institution_ids":["https://openalex.org/I169173203","https://openalex.org/I4210091437","https://openalex.org/I204730241"]},{"raw_affiliation_string":"Univ Paris Diderot, Sorbonne Paris Cit\u00e9, Laboratoire PPS, UMR 7126, F-75205 Paris, France#TAB#","institution_ids":["https://openalex.org/I204730241","https://openalex.org/I169173203"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5077182970"],"corresponding_institution_ids":["https://openalex.org/I169173203","https://openalex.org/I204730241","https://openalex.org/I4210091437"],"apc_list":null,"apc_paid":null,"fwci":0.671,"has_fulltext":false,"cited_by_count":16,"citation_normalized_percentile":{"value":0.68274988,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"284","issue":null,"first_page":"55","last_page":"74"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9739000201225281,"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":0.9739000201225281,"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/abstraction","display_name":"Abstraction","score":0.7530903816223145},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5982257723808289},{"id":"https://openalex.org/keywords/order","display_name":"Order (exchange)","score":0.46864837408065796},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3846198320388794},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3829544186592102},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.37590330839157104},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2485416829586029},{"id":"https://openalex.org/keywords/epistemology","display_name":"Epistemology","score":0.10061222314834595}],"concepts":[{"id":"https://openalex.org/C124304363","wikidata":"https://www.wikidata.org/wiki/Q673661","display_name":"Abstraction","level":2,"score":0.7530903816223145},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5982257723808289},{"id":"https://openalex.org/C182306322","wikidata":"https://www.wikidata.org/wiki/Q1779371","display_name":"Order (exchange)","level":2,"score":0.46864837408065796},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3846198320388794},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3829544186592102},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.37590330839157104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2485416829586029},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.10061222314834595},{"id":"https://openalex.org/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","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/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1016/j.entcs.2012.05.015","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.entcs.2012.05.015","pdf_url":null,"source":{"id":"https://openalex.org/S50368787","display_name":"Electronic Notes in Theoretical Computer Science","issn_l":"1571-0661","issn":["1571-0661"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Electronic Notes in Theoretical Computer Science","raw_type":"journal-article"},{"id":"pmh:oai:HAL:hal-00692416v1","is_oa":true,"landing_page_url":"https://hal.science/hal-00692416","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"SASB 2011, 2011, Venice, Italy. pp.55-74, ⟨10.1016/j.entcs.2012.05.015⟩","raw_type":"Conference papers"}],"best_oa_location":{"id":"doi:10.1016/j.entcs.2012.05.015","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.entcs.2012.05.015","pdf_url":null,"source":{"id":"https://openalex.org/S50368787","display_name":"Electronic Notes in Theoretical Computer Science","issn_l":"1571-0661","issn":["1571-0661"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Electronic Notes in Theoretical Computer Science","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1511823635","https://openalex.org/W1520017299","https://openalex.org/W1532361198","https://openalex.org/W1563408323","https://openalex.org/W1584748694","https://openalex.org/W1588422495","https://openalex.org/W1595516773","https://openalex.org/W1851641680","https://openalex.org/W1934319200","https://openalex.org/W1958967754","https://openalex.org/W1998876840","https://openalex.org/W2007006124","https://openalex.org/W2027888011","https://openalex.org/W2106190666","https://openalex.org/W2126852846","https://openalex.org/W2136626795","https://openalex.org/W2151251638","https://openalex.org/W2155826291","https://openalex.org/W2169193349","https://openalex.org/W2340390498","https://openalex.org/W2492921849","https://openalex.org/W2913004508","https://openalex.org/W3101795875","https://openalex.org/W4205605414","https://openalex.org/W4251538155","https://openalex.org/W4285719527","https://openalex.org/W6630641464","https://openalex.org/W6632154661","https://openalex.org/W6635486669","https://openalex.org/W6640164960","https://openalex.org/W6641117313","https://openalex.org/W6652212618","https://openalex.org/W6684855472","https://openalex.org/W6703994068"],"related_works":["https://openalex.org/W2045155990","https://openalex.org/W4313163053","https://openalex.org/W4300973204","https://openalex.org/W3045811229","https://openalex.org/W1483408780","https://openalex.org/W4388675521","https://openalex.org/W2108135022","https://openalex.org/W3148810651","https://openalex.org/W2789077243","https://openalex.org/W2898772359"],"abstract_inverted_index":{"Various":[0],"calculi":[1,29],"have":[2],"been":[3],"proposed":[4],"to":[5,46],"model":[6],"different":[7],"levels":[8],"of":[9,11,27,40],"abstraction":[10],"cell":[12,42],"signaling":[13],"and":[14,33,51],"molecular":[15,52],"interactions.":[16],"In":[17],"this":[18],"paper":[19],"we":[20],"propose":[21],"a":[22],"framework":[23],"inspired":[24],"by":[25],"some":[26],"these":[28],"that":[30],"structures":[31],"interactions":[32],"agents":[34],"from":[35],"the":[36,41],"most":[37],"basic":[38],"elements":[39],"(protein":[43],"interaction":[44],"sites)":[45],"higher":[47],"order":[48],"ones":[49],"(compartments":[50],"species).":[53]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}