{"id":"https://openalex.org/W2896080372","doi":"https://doi.org/10.1371/journal.pcbi.1006538","title":"Computational discovery of dynamic cell line specific Boolean networks from multiplex time-course data","display_name":"Computational discovery of dynamic cell line specific Boolean networks from multiplex time-course data","publication_year":2018,"publication_date":"2018-10-29","ids":{"openalex":"https://openalex.org/W2896080372","doi":"https://doi.org/10.1371/journal.pcbi.1006538","mag":"2896080372","pmid":"https://pubmed.ncbi.nlm.nih.gov/30372442"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1006538","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006538","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006538&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","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006538&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007582732","display_name":"Misbah Razzaq","orcid":"https://orcid.org/0000-0003-4961-6802"},"institutions":[{"id":"https://openalex.org/I100445878","display_name":"\u00c9cole Centrale de Nantes","ror":"https://ror.org/03nh7d505","country_code":"FR","type":"education","lineage":["https://openalex.org/I100445878","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210117005","display_name":"Laboratoire des Sciences du Num\u00e9rique de Nantes","ror":"https://ror.org/02snf8m58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210117005","https://openalex.org/I4210124215","https://openalex.org/I4210127572","https://openalex.org/I4210139971","https://openalex.org/I97188460","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Misbah Razzaq","raw_affiliation_strings":["Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France","institution_ids":["https://openalex.org/I97188460","https://openalex.org/I100445878","https://openalex.org/I4210117005","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067946028","display_name":"Lo\u00efc Paulev\u00e9","orcid":"https://orcid.org/0000-0002-7219-2027"},"institutions":[{"id":"https://openalex.org/I102197404","display_name":"Universit\u00e9 Paris-Sud","ror":"https://ror.org/028rypz17","country_code":"FR","type":"education","lineage":["https://openalex.org/I102197404"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210144804","display_name":"Laboratoire de Recherche en Informatique","ror":"https://ror.org/04e3ktk27","country_code":"FR","type":"facility","lineage":["https://openalex.org/I102197404","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I4210144804","https://openalex.org/I4210159245"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Lo\u00efc Paulev\u00e9","raw_affiliation_strings":["LRI UMR8623, Universit\u00e9 Paris-Sud, CNRS, Universit\u00e9 Paris-Saclay, F-91400 Orsay, France","Universit\u00e9 Bordeaux, Bordeaux INP, CNRS, LaBRI, UMR5800, F-33400 Talence, France"],"affiliations":[{"raw_affiliation_string":"LRI UMR8623, Universit\u00e9 Paris-Sud, CNRS, Universit\u00e9 Paris-Saclay, F-91400 Orsay, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I102197404","https://openalex.org/I1294671590","https://openalex.org/I4210144804"]},{"raw_affiliation_string":"Universit\u00e9 Bordeaux, Bordeaux INP, CNRS, LaBRI, UMR5800, F-33400 Talence, France","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I1294671590","https://openalex.org/I4210160189","https://openalex.org/I4210142254"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063755415","display_name":"Anne Siegel","orcid":"https://orcid.org/0000-0001-6542-1568"},"institutions":[{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Anne Siegel","raw_affiliation_strings":["Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires, Rennes, France"],"affiliations":[{"raw_affiliation_string":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires, Rennes, France","institution_ids":["https://openalex.org/I2802519937"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005499510","display_name":"Julio S\u00e1ez-Rodr\u00edguez","orcid":"https://orcid.org/0000-0002-8552-8976"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Julio Saez-Rodriguez","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridgeshire, UK","RWTH-Aachen University, Faculty of Medicine, Joint Research Center for Computational Biomedicine, Aachen, Germany"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridgeshire, UK","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"RWTH-Aachen University, Faculty of Medicine, Joint Research Center for Computational Biomedicine, Aachen, Germany","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037413740","display_name":"J\u00e9r\u00e9mie Bourdon","orcid":"https://orcid.org/0000-0001-6674-8626"},"institutions":[{"id":"https://openalex.org/I100445878","display_name":"\u00c9cole Centrale de Nantes","ror":"https://ror.org/03nh7d505","country_code":"FR","type":"education","lineage":["https://openalex.org/I100445878","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210117005","display_name":"Laboratoire des Sciences du Num\u00e9rique de Nantes","ror":"https://ror.org/02snf8m58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210117005","https://openalex.org/I4210124215","https://openalex.org/I4210127572","https://openalex.org/I4210139971","https://openalex.org/I97188460","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"J\u00e9r\u00e9mie Bourdon","raw_affiliation_strings":["Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France","institution_ids":["https://openalex.org/I97188460","https://openalex.org/I100445878","https://openalex.org/I4210117005","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067131511","display_name":"Carito Guzio\u0142owski","orcid":"https://orcid.org/0000-0001-5192-0745"},"institutions":[{"id":"https://openalex.org/I100445878","display_name":"\u00c9cole Centrale de Nantes","ror":"https://ror.org/03nh7d505","country_code":"FR","type":"education","lineage":["https://openalex.org/I100445878","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210117005","display_name":"Laboratoire des Sciences du Num\u00e9rique de Nantes","ror":"https://ror.org/02snf8m58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210117005","https://openalex.org/I4210124215","https://openalex.org/I4210127572","https://openalex.org/I4210139971","https://openalex.org/I97188460","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Carito Guziolowski","raw_affiliation_strings":["Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France"],"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Nantes, Centrale Nantes, CNRS, Laboratoire des Sciences du Num\u00e9rique de Nantes (LS2N UMR 6004), F-44000, Nantes, France","institution_ids":["https://openalex.org/I97188460","https://openalex.org/I100445878","https://openalex.org/I4210117005","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5067131511"],"corresponding_institution_ids":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I4210117005","https://openalex.org/I97188460"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":1980,"currency":"EUR","value_usd":2135},"fwci":2.0479,"has_fulltext":true,"cited_by_count":34,"citation_normalized_percentile":{"value":0.87690072,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"14","issue":"10","first_page":"e1006538","last_page":"e1006538"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9995999932289124,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9966999888420105,"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":0.651293158531189},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.6406064033508301},{"id":"https://openalex.org/keywords/boolean-network","display_name":"Boolean network","score":0.4942910671234131},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46228933334350586},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.42955881357192993},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.34339118003845215},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31523942947387695},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.20414909720420837},{"id":"https://openalex.org/keywords/boolean-function","display_name":"Boolean function","score":0.18654906749725342}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.651293158531189},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.6406064033508301},{"id":"https://openalex.org/C134444547","wikidata":"https://www.wikidata.org/wiki/Q585230","display_name":"Boolean network","level":3,"score":0.4942910671234131},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46228933334350586},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.42955881357192993},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.34339118003845215},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31523942947387695},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.20414909720420837},{"id":"https://openalex.org/C187455244","wikidata":"https://www.wikidata.org/wiki/Q942353","display_name":"Boolean function","level":2,"score":0.18654906749725342}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010750","descriptor_name":"Phosphoproteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":10,"locations":[{"id":"doi:10.1371/journal.pcbi.1006538","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006538","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006538&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:30372442","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30372442","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-01897020v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01897020","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":"PLoS Computational Biology, 2018, 14, pp.1-23. &#x27E8;10.1371/journal.pcbi.1006538&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:RePEc:plo:pcbi00:1006538","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006538","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:dd641583953a42aba07201dfa4230365","is_oa":true,"landing_page_url":"https://doaj.org/article/dd641583953a42aba07201dfa4230365","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"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 14, Iss 10, p e1006538 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5202374","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6224120","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/7265810","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Computational_discovery_of_dynamic_cell_line_specific_Boolean_Networks_from_multiplex_time-course_data/7265810","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:publications.rwth-aachen.de:757418","is_oa":true,"landing_page_url":"https://publications.rwth-aachen.de/search?p=id:%22RWTH-CONV-237479%22","pdf_url":null,"source":{"id":"https://openalex.org/S4306401033","display_name":"RWTH Publications (RWTH Aachen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887968799","host_organization_name":"RWTH Aachen University","host_organization_lineage":["https://openalex.org/I887968799"],"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":"PLoS Computational Biology 14(10), e1006538 (2018). doi:10.1371/journal.pcbi.1006538","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6224120","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6224120","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"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"},{"id":"doi:10.18154/rwth-conv-237479","is_oa":true,"landing_page_url":"https://doi.org/10.18154/rwth-conv-237479","pdf_url":null,"source":{"id":"https://openalex.org/S4306401033","display_name":"RWTH Publications (RWTH Aachen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887968799","host_organization_name":"RWTH Aachen University","host_organization_lineage":["https://openalex.org/I887968799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1006538","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1006538","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006538&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":[{"id":"https://metadata.un.org/sdg/3","score":0.6100000143051147,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G2204419101","display_name":null,"funder_award_id":"ANR-16-CE12-0034","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7428494302","display_name":null,"funder_award_id":"ANR-16-CE12","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G7758152977","display_name":null,"funder_award_id":"support","funder_id":"https://openalex.org/F4320322892","funder_display_name":"Centre National de la Recherche Scientifique"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2896080372.pdf","grobid_xml":"https://content.openalex.org/works/W2896080372.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W46480492","https://openalex.org/W253803806","https://openalex.org/W561197539","https://openalex.org/W1489391022","https://openalex.org/W1493657719","https://openalex.org/W1527927437","https://openalex.org/W1545070306","https://openalex.org/W1903938722","https://openalex.org/W1971224531","https://openalex.org/W1982114594","https://openalex.org/W1982428412","https://openalex.org/W1986177561","https://openalex.org/W1996760951","https://openalex.org/W2015401980","https://openalex.org/W2027631876","https://openalex.org/W2040676413","https://openalex.org/W2044702943","https://openalex.org/W2050200982","https://openalex.org/W2057616220","https://openalex.org/W2073903631","https://openalex.org/W2081034667","https://openalex.org/W2096283457","https://openalex.org/W2108020239","https://openalex.org/W2117513900","https://openalex.org/W2123125245","https://openalex.org/W2126877057","https://openalex.org/W2127808973","https://openalex.org/W2130324073","https://openalex.org/W2149161430","https://openalex.org/W2151467930","https://openalex.org/W2155320925","https://openalex.org/W2155723007","https://openalex.org/W2156070536","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2163485494","https://openalex.org/W2167334954","https://openalex.org/W2169215357","https://openalex.org/W2209982993","https://openalex.org/W2280966365","https://openalex.org/W2305802361","https://openalex.org/W2320234496","https://openalex.org/W2324350519","https://openalex.org/W2404196336","https://openalex.org/W2476204664","https://openalex.org/W2489066146","https://openalex.org/W2514850942","https://openalex.org/W2529634546","https://openalex.org/W2537623931","https://openalex.org/W2560367415","https://openalex.org/W2579855366","https://openalex.org/W2623761406","https://openalex.org/W2950638330","https://openalex.org/W4242404314","https://openalex.org/W4249997060","https://openalex.org/W4294216483","https://openalex.org/W6679598573"],"related_works":["https://openalex.org/W2402814600","https://openalex.org/W2158714033","https://openalex.org/W2171835071","https://openalex.org/W78967844","https://openalex.org/W5284979","https://openalex.org/W2097450978","https://openalex.org/W3213185671","https://openalex.org/W4210989272","https://openalex.org/W2128085946","https://openalex.org/W4386628104"],"abstract_inverted_index":{"Protein":[0],"signaling":[1,43,59,109,154,201,316],"networks":[2,60],"are":[3,94,260,322],"static":[4],"views":[5],"of":[6,65,78,106,142,183,191,232,245,252,314],"dynamic":[7,303],"processes":[8],"where":[9],"proteins":[10],"go":[11],"through":[12],"many":[13,112],"biochemical":[14],"modifications":[15],"such":[16,54],"as":[17,30,55,287,300],"ubiquitination":[18],"and":[19,27,44,81,102,126,171,177,216,320],"phosphorylation":[20],"to":[21,74,83,88,100,116,129,146,179,236,273,291],"propagate":[22],"signals":[23],"that":[24],"regulate":[25],"cells":[26,50],"can":[28,40,283],"act":[29],"feed-back":[31],"systems.":[32],"Understanding":[33],"the":[34,72,76,79,104,107,164,219,237,241,263,274],"precise":[35],"mechanisms":[36],"underlying":[37],"protein":[38,58,68,108,153,200],"interactions":[39],"elucidate":[41],"how":[42],"cell":[45,195,209,221],"cycle":[46],"progression":[47],"occur":[48],"within":[49],"in":[51,133,307],"different":[52],"diseases":[53],"cancer.":[56],"Large-scale":[57],"contain":[61],"an":[62,140,301],"important":[63],"number":[64],"experimentally":[66],"verified":[67],"relations":[69],"but":[70],"lack":[71],"capability":[73],"predict":[75],"outcomes":[77],"system,":[80],"therefore":[82],"be":[84,285],"trained":[85],"with":[86,234,262],"respect":[87,235],"experimental":[89,131,312],"measurements.":[90],"Boolean":[91],"Networks":[92],"(BNs)":[93],"a":[95,143,158,181,198,226,250,268,288],"simple":[96],"yet":[97],"powerful":[98],"framework":[99],"study":[101,162],"model":[103,117,304],"dynamics":[105],"networks.":[110,155,317],"While":[111],"BN":[113,206],"approaches":[114],"exist":[115,128],"biological":[118],"systems,":[119],"they":[120],"focus":[121],"mainly":[122],"on":[123],"system":[124],"properties,":[125],"few":[127],"integrate":[130,147],"data":[132,151,190,313,321],"them.":[134],"In":[135,279],"this":[136,246],"work,":[137],"we":[138],"show":[139],"application":[141],"method":[144,173,213,244,290,306],"conceived":[145],"time":[148,188,310],"series":[149,189],"phosphoproteomic":[150],"into":[152],"We":[156],"use":[157],"large-scale":[159,315],"real":[160],"case":[161],"from":[163,185],"HPN-DREAM":[165,247,277],"Breast":[166],"Cancer":[167],"challenge.":[168],"Our":[169,223],"efficient":[170,302],"parameter-free":[172],"combines":[174],"logic":[175],"programming":[176],"model-checking":[178],"infer":[180],"family":[182,207],"BNs":[184,259],"multiple":[186,308],"perturbation":[187,309],"four":[192,220],"breast":[193],"cancer":[194],"lines":[196],"given":[197],"prior":[199],"network.":[202],"Because":[203],"each":[204],"predicted":[205],"is":[208],"line":[210],"specific,":[211],"our":[212,257,281,298],"highlights":[214],"commonalities":[215],"discrepancies":[217],"between":[218],"lines.":[222],"models":[224],"have":[225],"Root":[227],"Mean":[228],"Square":[229],"Error":[230],"(RMSE)":[231],"0.31":[233],"testing":[238],"data,":[239],"while":[240],"best":[242],"performant":[243],"challenge":[248],"had":[249],"RMSE":[251],"0.47.":[253],"To":[254],"further":[255],"validate":[256],"results,":[258],"compared":[261],"canonical":[264],"mTOR":[265],"pathway":[266],"showing":[267],"comparable":[269],"AUROC":[270],"score":[271],"(0.77)":[272],"top":[275],"performing":[276],"teams.":[278],"addition,":[280],"approach":[282],"also":[284],"used":[286],"complementary":[289],"identify":[292],"erroneous":[293],"experiments.":[294],"These":[295],"results":[296],"prove":[297],"methodology":[299],"discovery":[305],"course":[311],"The":[318],"software":[319],"publicly":[323],"available":[324],"at":[325],"https://github.com/misbahch6/caspo-ts.":[326]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":5}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2018-10-26T00:00:00"}
