{"id":"https://openalex.org/W2119980081","doi":"https://doi.org/10.1109/acc.2008.4586910","title":"Identification of stable genetic networks using convex programming","display_name":"Identification of stable genetic networks using convex programming","publication_year":2008,"publication_date":"2008-06-01","ids":{"openalex":"https://openalex.org/W2119980081","doi":"https://doi.org/10.1109/acc.2008.4586910","mag":"2119980081"},"language":"en","primary_location":{"id":"doi:10.1109/acc.2008.4586910","is_oa":false,"landing_page_url":"https://doi.org/10.1109/acc.2008.4586910","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 American Control Conference","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"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/A5080808780","display_name":"Michael M. Zavlanos","orcid":"https://orcid.org/0000-0003-1748-8228"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael M. Zavlanos","raw_affiliation_strings":["Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","Dept. of Electr. & Syst. Eng., Univ. of Pennsylvania, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Dept. of Electr. & Syst. Eng., Univ. of Pennsylvania, Philadelphia, PA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029921181","display_name":"A. Agung Julius","orcid":"https://orcid.org/0000-0002-0970-3226"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. Agung Julius","raw_affiliation_strings":["Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","Dept. of Electr. & Syst. Eng., Univ. of Pennsylvania, Philadelphia, PA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Dept. of Electr. & Syst. Eng., Univ. of Pennsylvania, Philadelphia, PA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111730718","display_name":"Stephen P. Boyd","orcid":null},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephen P. Boyd","raw_affiliation_strings":["Department of Electrical Engineering, University of Stanford, Stanford, CA, USA","[Department of Electrical Engineering, Stanford University, CA, 94305, USA]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering, University of Stanford, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"[Department of Electrical Engineering, Stanford University, CA, 94305, USA]","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029243115","display_name":"George J. Pappas","orcid":"https://orcid.org/0000-0001-9081-0637"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George J. Pappas","raw_affiliation_strings":["Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","Department of Electrical and Systems Engineering. University of Pennsylvania, Philadelphia, 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Electrical and Systems Engineering. University of Pennsylvania, Philadelphia, 19104, USA","institution_ids":["https://openalex.org/I79576946"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":16.0662,"has_fulltext":false,"cited_by_count":40,"citation_normalized_percentile":{"value":0.99354555,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"2755","last_page":"2760"},"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/T11178","display_name":"Receptor Mechanisms and Signaling","score":0.982200026512146,"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/T10604","display_name":"RNA Research and Splicing","score":0.9710999727249146,"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":0.5938593149185181},{"id":"https://openalex.org/keywords/convex-optimization","display_name":"Convex optimization","score":0.5134381055831909},{"id":"https://openalex.org/keywords/perturbation","display_name":"Perturbation (astronomy)","score":0.5086439847946167},{"id":"https://openalex.org/keywords/regular-polygon","display_name":"Regular polygon","score":0.49103713035583496},{"id":"https://openalex.org/keywords/genetic-algorithm","display_name":"Genetic algorithm","score":0.48597797751426697},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.48225003480911255},{"id":"https://openalex.org/keywords/genetic-programming","display_name":"Genetic programming","score":0.46917325258255005},{"id":"https://openalex.org/keywords/genetic-network","display_name":"Genetic network","score":0.4584720730781555},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4280858337879181},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.3836764991283417},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3643222451210022},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.358852744102478},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35031893849372864},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2963952422142029},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2624746561050415},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2501356601715088},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23595169186592102},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.20395362377166748},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.203276127576828},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.15544816851615906}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5938593149185181},{"id":"https://openalex.org/C157972887","wikidata":"https://www.wikidata.org/wiki/Q463359","display_name":"Convex optimization","level":3,"score":0.5134381055831909},{"id":"https://openalex.org/C177918212","wikidata":"https://www.wikidata.org/wiki/Q803623","display_name":"Perturbation (astronomy)","level":2,"score":0.5086439847946167},{"id":"https://openalex.org/C112680207","wikidata":"https://www.wikidata.org/wiki/Q714886","display_name":"Regular polygon","level":2,"score":0.49103713035583496},{"id":"https://openalex.org/C8880873","wikidata":"https://www.wikidata.org/wiki/Q187787","display_name":"Genetic algorithm","level":2,"score":0.48597797751426697},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.48225003480911255},{"id":"https://openalex.org/C110332635","wikidata":"https://www.wikidata.org/wiki/Q629498","display_name":"Genetic programming","level":2,"score":0.46917325258255005},{"id":"https://openalex.org/C2986044853","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Genetic network","level":3,"score":0.4584720730781555},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4280858337879181},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.3836764991283417},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3643222451210022},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.358852744102478},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35031893849372864},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2963952422142029},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2624746561050415},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2501356601715088},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23595169186592102},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.20395362377166748},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.203276127576828},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.15544816851615906},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","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}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/acc.2008.4586910","is_oa":false,"landing_page_url":"https://doi.org/10.1109/acc.2008.4586910","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 American Control Conference","raw_type":"proceedings-article"},{"id":"pmh:oai:repository.upenn.edu:grasp_papers-1040","is_oa":false,"landing_page_url":"https://repository.upenn.edu/cgi/viewcontent.cgi?article=1040&context=grasp_papers","pdf_url":null,"source":{"id":"https://openalex.org/S4377196331","display_name":"Scholarly Commons (University of Pennsylvania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79576946","host_organization_name":"University of Pennsylvania","host_organization_lineage":["https://openalex.org/I79576946"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Lab Papers (GRASP)","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.157.7319","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.157.7319","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.seas.upenn.edu/~pappasg/papers/ZJBP-ACC08.pdf","raw_type":"text"},{"id":"pmh:oai:repository.upenn.edu:20.500.14332/34792","is_oa":false,"landing_page_url":"https://repository.upenn.edu/handle/20.500.14332/34792","pdf_url":null,"source":{"id":"https://openalex.org/S4306402083","display_name":"ScholarlyCommons (University of Pennsylvania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79576946","host_organization_name":"University of Pennsylvania","host_organization_lineage":["https://openalex.org/I79576946"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"published","raw_type":"Presentation"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":22,"referenced_works":["https://openalex.org/W391578156","https://openalex.org/W1979642041","https://openalex.org/W2007471837","https://openalex.org/W2076372398","https://openalex.org/W2102471334","https://openalex.org/W2103630117","https://openalex.org/W2107861471","https://openalex.org/W2110070747","https://openalex.org/W2115108153","https://openalex.org/W2124025352","https://openalex.org/W2145096794","https://openalex.org/W2146179241","https://openalex.org/W2147656689","https://openalex.org/W2150926065","https://openalex.org/W2152740075","https://openalex.org/W2153597269","https://openalex.org/W2170704198","https://openalex.org/W2296319761","https://openalex.org/W2610857016","https://openalex.org/W2611370172","https://openalex.org/W2951396542","https://openalex.org/W4250589301"],"related_works":["https://openalex.org/W2541637799","https://openalex.org/W1574161006","https://openalex.org/W1604948362","https://openalex.org/W2094749864","https://openalex.org/W2015736151","https://openalex.org/W1831373594","https://openalex.org/W1530164014","https://openalex.org/W1988143233","https://openalex.org/W2017208764","https://openalex.org/W1691392868"],"abstract_inverted_index":{"Gene":[0],"regulatory":[1],"networks":[2],"capture":[3],"interactions":[4,110],"between":[5,111],"genes":[6,29],"and":[7,22,53,135],"other":[8],"cell":[9],"substances,":[10],"resulting":[11,55],"in":[12,33,36,57],"various":[13],"models":[14],"for":[15,130],"the":[16,28,54,97,132,140],"fundamental":[17],"biological":[18],"process":[19],"of":[20,27,92,96,118,142],"transcription":[21],"translation.":[23],"The":[24],"expression":[25,58],"levels":[26],"are":[30,48,60],"typically":[31],"measured":[32],"mRNA":[34],"concentrations":[35],"micro-array":[37],"experiments.":[38],"In":[39],"a":[40,65,70,90,116,126],"so":[41],"called":[42],"genetic":[43,73,78,144],"perturbation":[44,79],"experiment,":[45],"small":[46],"perturbations":[47],"applied":[49],"to":[50,139],"equilibrium":[51],"states":[52],"changes":[56],"activity":[59],"measured.":[61],"This":[62],"paper":[63],"develops":[64],"novel":[66],"algorithm":[67,86],"that":[68,75],"identifies":[69],"sparse":[71],"stable":[72],"network":[74,98],"explains":[76],"noisy":[77],"experiments":[80],"obtained":[81],"at":[82],"equilibrium.":[83],"Our":[84,121],"identification":[85,141],"can":[87,101],"also":[88],"incorporate":[89],"variety":[91],"possible":[93],"prior":[94],"knowledge":[95],"structure,":[99],"which":[100],"be":[102],"either":[103],"qualitative,":[104],"specifying":[105,115],"positive,":[106],"negative":[107],"or":[108,113],"no":[109],"genes,":[112],"quantitative,":[114],"range":[117],"interaction":[119],"strength.":[120],"method":[122],"is":[123,137],"based":[124],"on":[125],"convex":[127],"programming":[128],"relaxation":[129],"handling":[131],"sparsity":[133],"constraint,":[134],"therefore":[136],"applicable":[138],"genome-scale":[143],"networks.":[145]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":3}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}