{"id":"https://openalex.org/W1761088907","doi":"https://doi.org/10.1186/1752-0509-1-7","title":"Synthetic tetracycline-inducible regulatory networks: computer-aided design of dynamic phenotypes","display_name":"Synthetic tetracycline-inducible regulatory networks: computer-aided design of dynamic phenotypes","publication_year":2007,"publication_date":"2007-01-09","ids":{"openalex":"https://openalex.org/W1761088907","doi":"https://doi.org/10.1186/1752-0509-1-7","mag":"1761088907","pmid":"https://pubmed.ncbi.nlm.nih.gov/17408514"},"language":"en","primary_location":{"id":"doi:10.1186/1752-0509-1-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047944693","display_name":"Vassilios Sotiropoulos","orcid":null},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Vassilios Sotiropoulos","raw_affiliation_strings":["Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, 421 Washington Ave SE, Minneapolis, MN 55455 USA. sotiropo@cems.umn.edu","Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, Minneapolis, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, 421 Washington Ave SE, Minneapolis, MN 55455 USA. sotiropo@cems.umn.edu","institution_ids":["https://openalex.org/I130238516"]},{"raw_affiliation_string":"Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, Minneapolis, USA","institution_ids":["https://openalex.org/I130238516"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086327435","display_name":"Yiannis N. Kaznessis","orcid":"https://orcid.org/0000-0002-5088-1104"},"institutions":[{"id":"https://openalex.org/I130238516","display_name":"University of Minnesota","ror":"https://ror.org/017zqws13","country_code":"US","type":"education","lineage":["https://openalex.org/I130238516"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yiannis N Kaznessis","raw_affiliation_strings":["Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, 421 Washington Ave SE, Minneapolis, MN, 55455, USA","Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, Minneapolis, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, 421 Washington Ave SE, Minneapolis, MN, 55455, USA","institution_ids":["https://openalex.org/I130238516"]},{"raw_affiliation_string":"Department of Chemical Engineering and Materials Science, and Digital Technology Center, University of Minnesota, Minneapolis, USA","institution_ids":["https://openalex.org/I130238516"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5047944693"],"corresponding_institution_ids":["https://openalex.org/I130238516"],"apc_list":null,"apc_paid":null,"fwci":2.6906,"has_fulltext":true,"cited_by_count":41,"citation_normalized_percentile":{"value":0.89817902,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"1","issue":"1","first_page":"7","last_page":"7"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8999000191688538,"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":0.8999000191688538,"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":0.022199999541044235,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.018300000578165054,"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/synthetic-biology","display_name":"Synthetic biology","score":0.7789614200592041},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6465700268745422},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.623056173324585},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6040536165237427},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5233016610145569},{"id":"https://openalex.org/keywords/operon","display_name":"Operon","score":0.5153748393058777},{"id":"https://openalex.org/keywords/rational-design","display_name":"Rational design","score":0.5060581564903259},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.46310967206954956},{"id":"https://openalex.org/keywords/operator","display_name":"Operator (biology)","score":0.41292911767959595},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.4020775258541107},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3865368366241455},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3579665720462799},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.3177563548088074},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.281715989112854},{"id":"https://openalex.org/keywords/mutant","display_name":"Mutant","score":0.2259497344493866},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21638047695159912},{"id":"https://openalex.org/keywords/repressor","display_name":"Repressor","score":0.21486207842826843}],"concepts":[{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.7789614200592041},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6465700268745422},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.623056173324585},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6040536165237427},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5233016610145569},{"id":"https://openalex.org/C203075996","wikidata":"https://www.wikidata.org/wiki/Q139677","display_name":"Operon","level":4,"score":0.5153748393058777},{"id":"https://openalex.org/C53105671","wikidata":"https://www.wikidata.org/wiki/Q14777816","display_name":"Rational design","level":2,"score":0.5060581564903259},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.46310967206954956},{"id":"https://openalex.org/C17020691","wikidata":"https://www.wikidata.org/wiki/Q139677","display_name":"Operator (biology)","level":5,"score":0.41292911767959595},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.4020775258541107},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3865368366241455},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3579665720462799},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.3177563548088074},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.281715989112854},{"id":"https://openalex.org/C143065580","wikidata":"https://www.wikidata.org/wiki/Q3285695","display_name":"Mutant","level":3,"score":0.2259497344493866},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21638047695159912},{"id":"https://openalex.org/C158448853","wikidata":"https://www.wikidata.org/wiki/Q425218","display_name":"Repressor","level":4,"score":0.21486207842826843}],"mesh":[{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":"Q000187","qualifier_name":"drug effects","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":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013752","descriptor_name":"Tetracycline","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D013752","descriptor_name":"Tetracycline","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D013752","descriptor_name":"Tetracycline","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D013753","descriptor_name":"Tetracycline Resistance","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013753","descriptor_name":"Tetracycline Resistance","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D013753","descriptor_name":"Tetracycline Resistance","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1752-0509-1-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:17408514","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17408514","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":"BMC systems biology","raw_type":null},{"id":"pmh:oai:europepmc.org:1191505","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1885862","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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1752-0509-1-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-1-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-1-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2350701946","display_name":"QSB:    Multiscale Modeling of Gene Regulatory Modules","funder_award_id":"0425882","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1761088907.pdf","grobid_xml":"https://content.openalex.org/works/W1761088907.grobid-xml"},"referenced_works_count":52,"referenced_works":["https://openalex.org/W4458210","https://openalex.org/W61685321","https://openalex.org/W1513639606","https://openalex.org/W1523595721","https://openalex.org/W1530368384","https://openalex.org/W1540505601","https://openalex.org/W1553861224","https://openalex.org/W1563526939","https://openalex.org/W1565753092","https://openalex.org/W1578482749","https://openalex.org/W1782528560","https://openalex.org/W1946177469","https://openalex.org/W1966573914","https://openalex.org/W1974272479","https://openalex.org/W1983904505","https://openalex.org/W1988933692","https://openalex.org/W1995700438","https://openalex.org/W1998963787","https://openalex.org/W2002083262","https://openalex.org/W2005275397","https://openalex.org/W2005423604","https://openalex.org/W2006898351","https://openalex.org/W2008613238","https://openalex.org/W2028175467","https://openalex.org/W2039877287","https://openalex.org/W2042321087","https://openalex.org/W2058527659","https://openalex.org/W2067653648","https://openalex.org/W2074401358","https://openalex.org/W2077539492","https://openalex.org/W2078734278","https://openalex.org/W2084924279","https://openalex.org/W2088649791","https://openalex.org/W2090429649","https://openalex.org/W2101348861","https://openalex.org/W2101703936","https://openalex.org/W2103029515","https://openalex.org/W2105631762","https://openalex.org/W2116553535","https://openalex.org/W2121777611","https://openalex.org/W2124775190","https://openalex.org/W2138261199","https://openalex.org/W2138992053","https://openalex.org/W2142529970","https://openalex.org/W2143970143","https://openalex.org/W2150712887","https://openalex.org/W2155418451","https://openalex.org/W2164055371","https://openalex.org/W2171280873","https://openalex.org/W2429468390","https://openalex.org/W3194094218","https://openalex.org/W4317564279"],"related_works":["https://openalex.org/W2057769265","https://openalex.org/W1973668657","https://openalex.org/W2338895903","https://openalex.org/W1911418903","https://openalex.org/W3044523069","https://openalex.org/W2024161258","https://openalex.org/W2136248167","https://openalex.org/W2126646394","https://openalex.org/W2211443823","https://openalex.org/W1987445442"],"abstract_inverted_index":{"BACKGROUND:":[0],"Tightly":[1],"regulated":[2],"gene":[3,106,118,268],"networks,":[4],"precisely":[5],"controlling":[6],"the":[7,17,26,34,41,80,93,97,114,128,167,175,197,212,215,260,264],"expression":[8,37,107],"of":[9,45,69,92,96,104,117,130,141,157,203,214,224,233,244,267,301],"protein":[10],"molecules,":[11],"have":[12],"received":[13],"considerable":[14],"interest":[15],"by":[16,151,295],"biomedical":[18],"community":[19],"due":[20],"to":[21,126,218,257,282],"their":[22,54],"promising":[23],"applications.":[24,278],"Among":[25],"most":[27],"well":[28],"studied":[29],"inducible":[30],"transcription":[31],"systems":[32,38],"are":[33,209,239,280],"tetracycline":[35,42],"regulatory":[36,105,131,163,234,269],"based":[39,165],"on":[40,166],"resistance":[43],"operon":[44],"Escherichia":[46],"coli,":[47],"Tet-Off":[48,168],"(tTA)":[49],"and":[50,57,75,82,87,133,169,185,191,199,211,230,236,271,285],"Tet-On":[51,170],"(rtTA).":[52],"Despite":[53],"initial":[55],"success":[56],"improved":[58],"designs,":[59],"limitations":[60],"still":[61],"persist,":[62],"such":[63],"as":[64],"low":[65],"inducer":[66],"sensitivity.":[67],"Instead":[68],"looking":[70],"at":[71],"these":[72,204],"networks":[73,132,150,164,270],"statically,":[74],"simply":[76],"changing":[77],"or":[78,155,287],"mutating":[79],"promoter":[81],"operator":[83,237],"regions":[84],"with":[85,276],"trial":[86],"error,":[88],"a":[89,299],"systematic":[90],"investigation":[91],"dynamic":[94,265],"behavior":[95,116,266],"network":[98],"can":[99,111],"result":[100],"in":[101,181],"rational":[102],"design":[103,220,226,289,302],"systems.":[108,171],"Sophisticated":[109],"algorithms":[110],"accurately":[112,195,248],"capture":[113,196],"dynamical":[115],"networks.":[119,205,307],"With":[120,187],"computer":[121,251],"aided":[122],"design,":[123],"we":[124,147,194,297],"aim":[125],"improve":[127],"synthesis":[129],"propose":[134],"new":[135],"designs":[136],"that":[137],"enable":[138],"tighter":[139],"control":[140],"expression.":[142],"RESULTS:":[143],"In":[144],"this":[145],"paper":[146],"engineer":[148,273],"novel":[149,162,274,305],"recombining":[152],"existing":[153],"genes":[154],"part":[156],"genes.":[158],"We":[159,172,279],"synthesize":[160],"four":[161],"model":[173],"all":[174],"known":[176],"individual":[177],"biomolecular":[178,207,245],"interactions":[179,208,216,246],"involved":[180],"transcription,":[182],"translation,":[183],"regulation":[184],"induction.":[186],"multiple":[188],"time-scale":[189],"stochastic-discrete":[190],"stochastic-continuous":[192],"models":[193],"transient":[198],"steady":[200],"state":[201],"dynamics":[202],"Important":[206],"identified":[210],"strength":[213],"engineered":[217],"satisfy":[219],"criteria.":[221],"A":[222],"set":[223,300],"clear":[225],"rules":[227],"is":[228,247],"developed":[229],"appropriate":[231],"mutants":[232],"proteins":[235],"sites":[238],"proposed.":[240],"CONCLUSION:":[241],"The":[242],"complexity":[243],"captured":[249],"through":[250],"simulations.":[252],"Computer":[253],"simulations":[254],"allow":[255],"us":[256],"look":[258],"into":[259],"molecular":[261],"level,":[262],"portray":[263],"rationally":[272],"ones":[275],"useful":[277],"able":[281],"propose,":[283],"test":[284],"accept":[286],"reject":[288],"principles":[290,303],"for":[291,304],"each":[292],"network.":[293],"Guided":[294],"simulations,":[296],"develop":[298],"tetracycline-inducible":[306]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}