{"id":"https://openalex.org/W3186067339","doi":"https://doi.org/10.1371/journal.pcbi.1009214","title":"Beyond the chemical master equation: Stochastic chemical kinetics coupled with auxiliary processes","display_name":"Beyond the chemical master equation: Stochastic chemical kinetics coupled with auxiliary processes","publication_year":2021,"publication_date":"2021-07-28","ids":{"openalex":"https://openalex.org/W3186067339","doi":"https://doi.org/10.1371/journal.pcbi.1009214","mag":"3186067339","pmid":"https://pubmed.ncbi.nlm.nih.gov/34319979"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1009214","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009214","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009214&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009214&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032806448","display_name":"Davin Lunz","orcid":"https://orcid.org/0000-0002-1603-0840"},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en sciences et technologies du num\u00e9rique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"government","lineage":["https://openalex.org/I1326498283"]},{"id":"https://openalex.org/I142476485","display_name":"\u00c9cole Polytechnique","ror":"https://ror.org/05hy3tk52","country_code":"FR","type":"education","lineage":["https://openalex.org/I142476485","https://openalex.org/I4210145102"]},{"id":"https://openalex.org/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]},{"id":"https://openalex.org/I4210126360","display_name":"Centre Inria de Saclay","ror":"https://ror.org/0315e5x55","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210126360"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Davin Lunz","raw_affiliation_strings":["Inria Paris, Paris, France","Inria Saclay - \u00cele de France, Palaiseau, France","Institut Pasteur, Paris, France","\u00c9cole Polytechnique, CMAP, Palaiseau, France","Inria Saclay \u2013 \u00cele de France, Palaiseau, France"],"raw_orcid":"https://orcid.org/0000-0002-1603-0840","affiliations":[{"raw_affiliation_string":"Inria Paris, Paris, France","institution_ids":["https://openalex.org/I1326498283"]},{"raw_affiliation_string":"Inria Saclay - \u00cele de France, Palaiseau, France","institution_ids":["https://openalex.org/I4210126360"]},{"raw_affiliation_string":"Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I157536573"]},{"raw_affiliation_string":"\u00c9cole Polytechnique, CMAP, Palaiseau, France","institution_ids":["https://openalex.org/I142476485"]},{"raw_affiliation_string":"Inria Saclay \u2013 \u00cele de France, Palaiseau, France","institution_ids":["https://openalex.org/I4210126360"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051551664","display_name":"Gr\u00e9gory Batt","orcid":"https://orcid.org/0000-0003-1697-139X"},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en sciences et technologies du num\u00e9rique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"government","lineage":["https://openalex.org/I1326498283"]},{"id":"https://openalex.org/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Gregory Batt","raw_affiliation_strings":["Inria Paris, Paris, France","Institut Pasteur, Paris, France"],"raw_orcid":"https://orcid.org/0000-0003-1697-139X","affiliations":[{"raw_affiliation_string":"Inria Paris, Paris, France","institution_ids":["https://openalex.org/I1326498283"]},{"raw_affiliation_string":"Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I157536573"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015991909","display_name":"Jakob Ruess","orcid":"https://orcid.org/0000-0003-1615-3282"},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en sciences et technologies du num\u00e9rique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"government","lineage":["https://openalex.org/I1326498283"]},{"id":"https://openalex.org/I157536573","display_name":"Institut Pasteur","ror":"https://ror.org/0495fxg12","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I157536573"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Jakob Ruess","raw_affiliation_strings":["Inria Paris, Paris, France","Institut Pasteur, Paris, France"],"raw_orcid":"https://orcid.org/0000-0003-1615-3282","affiliations":[{"raw_affiliation_string":"Inria Paris, Paris, France","institution_ids":["https://openalex.org/I1326498283"]},{"raw_affiliation_string":"Institut Pasteur, Paris, France","institution_ids":["https://openalex.org/I157536573"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076843972","display_name":"J. Fr\u00e9d\u00e9ric Bonnans","orcid":"https://orcid.org/0000-0003-0988-9865"},"institutions":[{"id":"https://openalex.org/I142476485","display_name":"\u00c9cole Polytechnique","ror":"https://ror.org/05hy3tk52","country_code":"FR","type":"education","lineage":["https://openalex.org/I142476485","https://openalex.org/I4210145102"]},{"id":"https://openalex.org/I4210126360","display_name":"Centre Inria de Saclay","ror":"https://ror.org/0315e5x55","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210126360"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"J. Fr\u00e9d\u00e9ric Bonnans","raw_affiliation_strings":["Inria Saclay - \u00cele de France, Palaiseau, France","\u00c9cole Polytechnique, CMAP, Palaiseau, France","Inria Saclay \u2013 \u00cele de France, Palaiseau, France"],"raw_orcid":"https://orcid.org/0000-0003-0988-9865","affiliations":[{"raw_affiliation_string":"Inria Saclay - \u00cele de France, Palaiseau, France","institution_ids":["https://openalex.org/I4210126360"]},{"raw_affiliation_string":"\u00c9cole Polytechnique, CMAP, Palaiseau, France","institution_ids":["https://openalex.org/I142476485"]},{"raw_affiliation_string":"Inria Saclay \u2013 \u00cele de France, Palaiseau, France","institution_ids":["https://openalex.org/I4210126360"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5032806448"],"corresponding_institution_ids":["https://openalex.org/I1326498283","https://openalex.org/I142476485","https://openalex.org/I157536573","https://openalex.org/I4210126360"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2127,"currency":"EUR","value_usd":2293},"fwci":1.0298,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.75448679,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"17","issue":"7","first_page":"e1009214","last_page":"e1009214"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":1.0,"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":1.0,"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/T10540","display_name":"Advanced Fluorescence Microscopy Techniques","score":0.9922999739646912,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.9916999936103821,"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/master-equation","display_name":"Master equation","score":0.8930016160011292},{"id":"https://openalex.org/keywords/solver","display_name":"Solver","score":0.830594539642334},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.6268059611320496},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5683035254478455},{"id":"https://openalex.org/keywords/chemical-process","display_name":"Chemical process","score":0.5425825715065002},{"id":"https://openalex.org/keywords/nonlinear-system","display_name":"Nonlinear system","score":0.48647043108940125},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.4670167565345764},{"id":"https://openalex.org/keywords/applied-mathematics","display_name":"Applied mathematics","score":0.4227161705493927},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.41964957118034363},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2297057807445526},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.21257197856903076},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.1720033586025238}],"concepts":[{"id":"https://openalex.org/C128805008","wikidata":"https://www.wikidata.org/wiki/Q722878","display_name":"Master equation","level":3,"score":0.8930016160011292},{"id":"https://openalex.org/C2778770139","wikidata":"https://www.wikidata.org/wiki/Q1966904","display_name":"Solver","level":2,"score":0.830594539642334},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.6268059611320496},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5683035254478455},{"id":"https://openalex.org/C124223222","wikidata":"https://www.wikidata.org/wiki/Q2281940","display_name":"Chemical process","level":2,"score":0.5425825715065002},{"id":"https://openalex.org/C158622935","wikidata":"https://www.wikidata.org/wiki/Q660848","display_name":"Nonlinear system","level":2,"score":0.48647043108940125},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.4670167565345764},{"id":"https://openalex.org/C28826006","wikidata":"https://www.wikidata.org/wiki/Q33521","display_name":"Applied mathematics","level":1,"score":0.4227161705493927},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.41964957118034363},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2297057807445526},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.21257197856903076},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.1720033586025238},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C84114770","wikidata":"https://www.wikidata.org/wiki/Q46344","display_name":"Quantum","level":2,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017711","descriptor_name":"Nonlinear Dynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017711","descriptor_name":"Nonlinear Dynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017711","descriptor_name":"Nonlinear Dynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055641","descriptor_name":"Mathematical Concepts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055641","descriptor_name":"Mathematical Concepts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055641","descriptor_name":"Mathematical Concepts","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1009214","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009214","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009214&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:34319979","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34319979","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:HAL:hal-02991103v1","is_oa":true,"landing_page_url":"https://hal.inria.fr/hal-02991103","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":"https://hal.inria.fr/hal-02991103","raw_type":"info:eu-repo/semantics/preprint"},{"id":"pmh:oai:HAL:hal-02991103v2","is_oa":true,"landing_page_url":"https://inria.hal.science/hal-02991103","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2021, &#x27E8;10.1371/journal.pcbi.1009214&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:RePEc:plo:pcbi00:1009214","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009214","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:doaj.org/article:4b872ddcf3104a8c8a77ca4519d77ae8","is_oa":true,"landing_page_url":"https://doaj.org/article/4b872ddcf3104a8c8a77ca4519d77ae8","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 17, Iss 7, p e1009214 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8352075","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8352075","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1009214","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009214","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009214&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6744286077","display_name":"Cybergenetic circuits to test composability of gene networks","funder_award_id":"ANR-18-CE91-0002","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G6876561401","display_name":null,"funder_award_id":"ANR-18","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G8907879167","display_name":"Mixed-Effects Models of Intracellular Processes: Methods, Tools and Applications","funder_award_id":"ANR-16-CE33-0018","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3186067339.pdf"},"referenced_works_count":56,"referenced_works":["https://openalex.org/W196325668","https://openalex.org/W230980609","https://openalex.org/W564930782","https://openalex.org/W1575877217","https://openalex.org/W1741451608","https://openalex.org/W1764661691","https://openalex.org/W1902630711","https://openalex.org/W1945188288","https://openalex.org/W1970592752","https://openalex.org/W1991263093","https://openalex.org/W1994983983","https://openalex.org/W2002083262","https://openalex.org/W2010337690","https://openalex.org/W2011894114","https://openalex.org/W2014759937","https://openalex.org/W2016645588","https://openalex.org/W2017851065","https://openalex.org/W2018670096","https://openalex.org/W2020335459","https://openalex.org/W2023760470","https://openalex.org/W2027938531","https://openalex.org/W2029635184","https://openalex.org/W2042321087","https://openalex.org/W2043785977","https://openalex.org/W2046451925","https://openalex.org/W2057073325","https://openalex.org/W2062856462","https://openalex.org/W2066594542","https://openalex.org/W2074401358","https://openalex.org/W2078734278","https://openalex.org/W2084774345","https://openalex.org/W2084924279","https://openalex.org/W2085061065","https://openalex.org/W2096741761","https://openalex.org/W2114390747","https://openalex.org/W2115368299","https://openalex.org/W2115965551","https://openalex.org/W2149242848","https://openalex.org/W2155418451","https://openalex.org/W2156669471","https://openalex.org/W2325056821","https://openalex.org/W2530985193","https://openalex.org/W2569268737","https://openalex.org/W2790747426","https://openalex.org/W2803629276","https://openalex.org/W2887717359","https://openalex.org/W2906353349","https://openalex.org/W2913199358","https://openalex.org/W2914532661","https://openalex.org/W3004116624","https://openalex.org/W3033855543","https://openalex.org/W3082002174","https://openalex.org/W3093943947","https://openalex.org/W3099488856","https://openalex.org/W3102865994","https://openalex.org/W3126121296"],"related_works":["https://openalex.org/W2073801793","https://openalex.org/W2378211422","https://openalex.org/W1986260494","https://openalex.org/W2111360083","https://openalex.org/W2745001401","https://openalex.org/W4321353415","https://openalex.org/W2097471616","https://openalex.org/W2052357196","https://openalex.org/W3186067339","https://openalex.org/W2095376828"],"abstract_inverted_index":{"The":[0],"chemical":[1,15,47,88],"master":[2,69,89],"equation":[3,70,90],"and":[4,46,71,96,99,127,134,148],"its":[5],"continuum":[6],"approximations":[7],"are":[8,19],"indispensable":[9],"tools":[10],"in":[11],"the":[12,61,68,87,107,122,129,150],"modeling":[13],"of":[14,44,119],"reaction":[16],"networks.":[17],"These":[18],"routinely":[20],"used":[21],"to":[22,91,131],"capture":[23,92],"complex":[24],"nonlinear":[25],"phenomena":[26],"such":[27,35,52,93],"as":[28,30,32,36,53],"multimodality":[29],"well":[31],"transient":[33],"events":[34],"first-passage":[37],"times,":[38],"that":[39,85,104],"accurately":[40,105],"characterise":[41],"a":[42,82,101,116],"plethora":[43],"biological":[45],"processes.":[48],"However,":[49],"some":[50],"mechanisms,":[51],"heterogeneous":[54],"cellular":[55],"growth":[56],"or":[57],"phenotypic":[58],"selection":[59],"at":[60],"population":[62],"level,":[63],"cannot":[64],"be":[65],"represented":[66],"by":[67,114],"thus":[72],"have":[73],"been":[74],"tackled":[75],"separately.":[76],"In":[77],"this":[78,125],"work,":[79],"we":[80,97],"propose":[81],"unifying":[83],"framework":[84,126],"augments":[86],"auxiliary":[94],"dynamics,":[95],"develop":[98],"analyse":[100],"numerical":[102,146],"solver":[103,130,151],"simulates":[106],"system":[108],"dynamics.":[109],"We":[110],"showcase":[111],"these":[112],"contributions":[113],"casting":[115],"diverse":[117],"array":[118],"examples":[120],"from":[121],"literature":[123],"within":[124],"applying":[128],"both":[132],"match":[133],"extend":[135],"previous":[136],"studies.":[137],"Analytical":[138],"calculations":[139],"performed":[140],"for":[141],"each":[142],"example":[143],"validate":[144],"our":[145],"results":[147],"benchmark":[149],"implementation.":[152]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
