{"id":"https://openalex.org/W2161850313","doi":"https://doi.org/10.1093/bioinformatics/btp138","title":"Switching regulatory models of cellular stress response","display_name":"Switching regulatory models of cellular stress response","publication_year":2009,"publication_date":"2009-03-11","ids":{"openalex":"https://openalex.org/W2161850313","doi":"https://doi.org/10.1093/bioinformatics/btp138","mag":"2161850313","pmid":"https://pubmed.ncbi.nlm.nih.gov/19279066"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp138","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp138","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"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/A5017674487","display_name":"Guido Sanguinetti","orcid":"https://orcid.org/0000-0002-6663-8336"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]},{"id":"https://openalex.org/I4577782","display_name":"Technische Universit\u00e4t Berlin","ror":"https://ror.org/03v4gjf40","country_code":"DE","type":"education","lineage":["https://openalex.org/I4577782"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["DE","GB"],"is_corresponding":true,"raw_author_name":"Guido Sanguinetti","raw_affiliation_strings":["1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK","institution_ids":["https://openalex.org/I91136226","https://openalex.org/I45129253","https://openalex.org/I4577782"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059750878","display_name":"Andreas Ruttor","orcid":null},"institutions":[{"id":"https://openalex.org/I4577782","display_name":"Technische Universit\u00e4t Berlin","ror":"https://ror.org/03v4gjf40","country_code":"DE","type":"education","lineage":["https://openalex.org/I4577782"]},{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Andreas Ruttor","raw_affiliation_strings":["1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK","institution_ids":["https://openalex.org/I91136226","https://openalex.org/I45129253","https://openalex.org/I4577782"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006626558","display_name":"Manfred Opper","orcid":"https://orcid.org/0000-0003-2856-7589"},"institutions":[{"id":"https://openalex.org/I4577782","display_name":"Technische Universit\u00e4t Berlin","ror":"https://ror.org/03v4gjf40","country_code":"DE","type":"education","lineage":["https://openalex.org/I4577782"]},{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Manfred Opper","raw_affiliation_strings":["1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK","institution_ids":["https://openalex.org/I91136226","https://openalex.org/I45129253","https://openalex.org/I4577782"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021107714","display_name":"C\u00e9dric Archambeau","orcid":null},"institutions":[{"id":"https://openalex.org/I4577782","display_name":"Technische Universit\u00e4t Berlin","ror":"https://ror.org/03v4gjf40","country_code":"DE","type":"education","lineage":["https://openalex.org/I4577782"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]},{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Cedric Archambeau","raw_affiliation_strings":["1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, University of Sheffield, Regent Court, 211 Portobello Road, Sheffield, S1 4DP, 2Biological and Environmental Systems Group, Department of Chemical and Process Engineering, University of Sheffield, Mappin Street, Sheffield, S1 3JD, UK, 3Department of Computer Science, Technische Universit\u00e4t Berlin, D-10587 Berlin, Germany and 4Department of Computer Science University College London, Gower Street, WC1E 6BT, UK","institution_ids":["https://openalex.org/I91136226","https://openalex.org/I45129253","https://openalex.org/I4577782"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5017674487"],"corresponding_institution_ids":["https://openalex.org/I45129253","https://openalex.org/I4577782","https://openalex.org/I91136226"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.0997,"has_fulltext":false,"cited_by_count":29,"citation_normalized_percentile":{"value":0.87175056,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"25","issue":"10","first_page":"1280","last_page":"1286"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","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/T10621","display_name":"Gene Regulatory Network Analysis","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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9861999750137329,"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":0.6502061486244202},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5471136569976807},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.45111751556396484},{"id":"https://openalex.org/keywords/fight-or-flight-response","display_name":"Fight-or-flight response","score":0.42585262656211853},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.38156023621559143},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2304624319076538},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13082686066627502},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09800878167152405}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6502061486244202},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5471136569976807},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.45111751556396484},{"id":"https://openalex.org/C78604142","wikidata":"https://www.wikidata.org/wiki/Q1640582","display_name":"Fight-or-flight response","level":3,"score":0.42585262656211853},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38156023621559143},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2304624319076538},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13082686066627502},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09800878167152405},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"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":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010100","descriptor_name":"Oxygen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010100","descriptor_name":"Oxygen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010100","descriptor_name":"Oxygen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013312","descriptor_name":"Stress, Physiological","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013312","descriptor_name":"Stress, Physiological","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013312","descriptor_name":"Stress, Physiological","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btp138","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp138","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19279066","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19279066","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321390","display_name":"Fonds De La Recherche Scientifique - FNRS","ror":"https://ror.org/03q83t159"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W1484033701","https://openalex.org/W1516111018","https://openalex.org/W1599969036","https://openalex.org/W1663973292","https://openalex.org/W2010532309","https://openalex.org/W2027068064","https://openalex.org/W2069645361","https://openalex.org/W2089062027","https://openalex.org/W2093154341","https://openalex.org/W2096218546","https://openalex.org/W2116208407","https://openalex.org/W2124584833","https://openalex.org/W2125373697","https://openalex.org/W2147256329","https://openalex.org/W2155465020","https://openalex.org/W2156404185","https://openalex.org/W2161653775","https://openalex.org/W2163973179","https://openalex.org/W2166303358","https://openalex.org/W2528271650","https://openalex.org/W2990138404","https://openalex.org/W4212863985","https://openalex.org/W4234011924","https://openalex.org/W4256425409","https://openalex.org/W4285719527","https://openalex.org/W6678740595","https://openalex.org/W6682788812","https://openalex.org/W7000602047"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"MATLAB":[0],"and":[1],"C++":[2],"code":[3],"used":[4],"in":[5],"the":[6],"article":[7],"can":[8],"be":[9],"downloaded":[10],"from":[11],"http://www.dcs.shef.ac.uk/~guido/.":[12]},"counts_by_year":[{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":7}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
