{"id":"https://openalex.org/W2037010474","doi":"https://doi.org/10.1109/cibcb.2012.6217260","title":"Information theoretic methods for modeling of gene regulatory networks","display_name":"Information theoretic methods for modeling of gene regulatory networks","publication_year":2012,"publication_date":"2012-05-01","ids":{"openalex":"https://openalex.org/W2037010474","doi":"https://doi.org/10.1109/cibcb.2012.6217260","mag":"2037010474"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2012.6217260","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2012.6217260","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"},"type":"article","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/A5076169902","display_name":"Amina Noor","orcid":null},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Amina Noor","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Texas A and M University, College Station, TX, USA","Department of Electrical and Computer Engineering, Texas A&M University,College Station,USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Texas A and M University, College Station, TX, USA","institution_ids":["https://openalex.org/I91045830"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Texas A&M University,College Station,USA","institution_ids":["https://openalex.org/I91045830"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034213361","display_name":"Erchin Serpedin","orcid":"https://orcid.org/0000-0001-9069-770X"},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erchin Serpedin","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Texas A and M University, College Station, TX, USA","Department of Electrical and Computer Engineering, Texas A&M University,College Station,USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Texas A and M University, College Station, TX, USA","institution_ids":["https://openalex.org/I91045830"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Texas A&M University,College Station,USA","institution_ids":["https://openalex.org/I91045830"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056444635","display_name":"Mohamed Nounou","orcid":"https://orcid.org/0000-0003-0520-9623"},"institutions":[{"id":"https://openalex.org/I58152225","display_name":"Texas A&M University at Qatar","ror":"https://ror.org/03vb4dm14","country_code":"QA","type":"education","lineage":["https://openalex.org/I58152225","https://openalex.org/I91045830"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Mohamed Nounou","raw_affiliation_strings":["Texas A and M University, Qatar, Doha, Qatar","Texas A&M University at Qatar, Doha Qatar"],"affiliations":[{"raw_affiliation_string":"Texas A and M University, Qatar, Doha, Qatar","institution_ids":["https://openalex.org/I58152225"]},{"raw_affiliation_string":"Texas A&M University at Qatar, Doha Qatar","institution_ids":["https://openalex.org/I58152225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025512804","display_name":"Hazem Nounou","orcid":"https://orcid.org/0000-0001-8075-1581"},"institutions":[{"id":"https://openalex.org/I58152225","display_name":"Texas A&M University at Qatar","ror":"https://ror.org/03vb4dm14","country_code":"QA","type":"education","lineage":["https://openalex.org/I58152225","https://openalex.org/I91045830"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Hazem Nounou","raw_affiliation_strings":["Texas A and M University, Qatar, Doha, Qatar","Texas A&M University at Qatar, Doha Qatar"],"affiliations":[{"raw_affiliation_string":"Texas A and M University, Qatar, Doha, Qatar","institution_ids":["https://openalex.org/I58152225"]},{"raw_affiliation_string":"Texas A&M University at Qatar, Doha Qatar","institution_ids":["https://openalex.org/I58152225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103466538","display_name":"Nady Mohamed","orcid":null},"institutions":[{"id":"https://openalex.org/I4210152471","display_name":"Weill Cornell Medical College in Qatar","ror":"https://ror.org/05v5hg569","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210152471"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Nady Mohamed","raw_affiliation_strings":["Weill Cornell Medical College, Doha, Qatar","Weill Cornell Medical college Doha Qatar"],"affiliations":[{"raw_affiliation_string":"Weill Cornell Medical College, Doha, Qatar","institution_ids":["https://openalex.org/I4210152471"]},{"raw_affiliation_string":"Weill Cornell Medical college Doha Qatar","institution_ids":["https://openalex.org/I4210152471"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050542224","display_name":"Lotfi Chouchane","orcid":"https://orcid.org/0000-0002-2082-7924"},"institutions":[{"id":"https://openalex.org/I4210152471","display_name":"Weill Cornell Medical College in Qatar","ror":"https://ror.org/05v5hg569","country_code":"QA","type":"education","lineage":["https://openalex.org/I4210152471"]}],"countries":["QA"],"is_corresponding":false,"raw_author_name":"Lotfi Chouchane","raw_affiliation_strings":["Weill Cornell Medical College, Doha, Qatar","Weill Cornell Medical college Doha Qatar"],"affiliations":[{"raw_affiliation_string":"Weill Cornell Medical College, Doha, Qatar","institution_ids":["https://openalex.org/I4210152471"]},{"raw_affiliation_string":"Weill Cornell Medical college Doha Qatar","institution_ids":["https://openalex.org/I4210152471"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5076169902"],"corresponding_institution_ids":["https://openalex.org/I91045830"],"apc_list":null,"apc_paid":null,"fwci":0.9194,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.72877815,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"11","issue":null,"first_page":"418","last_page":"423"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9941999912261963,"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":0.9916999936103821,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/mutual-information","display_name":"Mutual information","score":0.8014353513717651},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6798735857009888},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.6513156890869141},{"id":"https://openalex.org/keywords/interaction-information","display_name":"Interaction information","score":0.6366811990737915},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.566802442073822},{"id":"https://openalex.org/keywords/conditional-mutual-information","display_name":"Conditional mutual information","score":0.5274134874343872},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.514958918094635},{"id":"https://openalex.org/keywords/dependency","display_name":"Dependency (UML)","score":0.5137408971786499},{"id":"https://openalex.org/keywords/measure","display_name":"Measure (data warehouse)","score":0.5075620412826538},{"id":"https://openalex.org/keywords/pointwise-mutual-information","display_name":"Pointwise mutual information","score":0.49369677901268005},{"id":"https://openalex.org/keywords/dependency-graph","display_name":"Dependency graph","score":0.4499755799770355},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.43036335706710815},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.3953242897987366},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3513558506965637},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3397786617279053},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.32517221570014954},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2380269169807434},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14926815032958984}],"concepts":[{"id":"https://openalex.org/C152139883","wikidata":"https://www.wikidata.org/wiki/Q252973","display_name":"Mutual information","level":2,"score":0.8014353513717651},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6798735857009888},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.6513156890869141},{"id":"https://openalex.org/C38764148","wikidata":"https://www.wikidata.org/wiki/Q17098245","display_name":"Interaction information","level":2,"score":0.6366811990737915},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.566802442073822},{"id":"https://openalex.org/C124805900","wikidata":"https://www.wikidata.org/wiki/Q5159269","display_name":"Conditional mutual information","level":3,"score":0.5274134874343872},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.514958918094635},{"id":"https://openalex.org/C19768560","wikidata":"https://www.wikidata.org/wiki/Q320727","display_name":"Dependency (UML)","level":2,"score":0.5137408971786499},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.5075620412826538},{"id":"https://openalex.org/C7797323","wikidata":"https://www.wikidata.org/wiki/Q3798612","display_name":"Pointwise mutual information","level":3,"score":0.49369677901268005},{"id":"https://openalex.org/C16311509","wikidata":"https://www.wikidata.org/wiki/Q4148050","display_name":"Dependency graph","level":3,"score":0.4499755799770355},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.43036335706710815},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.3953242897987366},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3513558506965637},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3397786617279053},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32517221570014954},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2380269169807434},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14926815032958984},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2012.6217260","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2012.6217260","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":24,"referenced_works":["https://openalex.org/W204885769","https://openalex.org/W1481919380","https://openalex.org/W1547789987","https://openalex.org/W1851422093","https://openalex.org/W2000689241","https://openalex.org/W2001093852","https://openalex.org/W2012804055","https://openalex.org/W2017986542","https://openalex.org/W2030551718","https://openalex.org/W2040575507","https://openalex.org/W2087126293","https://openalex.org/W2105637806","https://openalex.org/W2108421561","https://openalex.org/W2137965767","https://openalex.org/W2153244486","https://openalex.org/W2154431984","https://openalex.org/W2154454113","https://openalex.org/W2163288162","https://openalex.org/W2163296115","https://openalex.org/W2478708596","https://openalex.org/W3099289621","https://openalex.org/W6628887588","https://openalex.org/W6632694598","https://openalex.org/W6682697150"],"related_works":["https://openalex.org/W2101924850","https://openalex.org/W4205619203","https://openalex.org/W2337819340","https://openalex.org/W2530029028","https://openalex.org/W2137853824","https://openalex.org/W2165143551","https://openalex.org/W2070118902","https://openalex.org/W4390964098","https://openalex.org/W4296367141","https://openalex.org/W2920110170"],"abstract_inverted_index":{"This":[0],"paper":[1],"reviews":[2],"the":[3,25,91,122,148,158,163],"information":[4,14,58,74],"theoretic":[5],"methods":[6],"used":[7,18,155],"for":[8],"inferring":[9],"gene":[10],"regulatory":[11],"networks.":[12],"Mutual":[13,78],"has":[15],"been":[16,76,119],"widely":[17],"as":[19,104,113],"a":[20,40,61,81,143],"dependency":[21],"measure":[22],"to":[23,86,156],"estimate":[24],"undirected":[26],"interactions":[27],"between":[28],"genes":[29,45],"using":[30,90,97,126],"steady":[31],"state":[32],"data.":[33],"However,":[34],"employing":[35],"time-series":[36,98],"data":[37,68,93,99,106],"results":[38],"in":[39,121,132],"directed":[41,88],"graph.":[42],"Since":[43],"two":[44],"may":[46,59],"be":[47,101],"interacting":[48],"with":[49],"each":[50],"other":[51],"via":[52],"an":[53],"intermediate":[54],"gene,":[55],"their":[56],"mutual":[57,73],"show":[60],"direct":[62],"dependency.":[63],"To":[64],"resolve":[65],"this":[66,133],"issue,":[67],"processing":[69],"inequality":[70],"and":[71,160,168],"conditional":[72],"have":[75,117],"employed.":[77],"information,":[79],"being":[80],"symmetric":[82],"measure,":[83],"is":[84,107,139,142],"unable":[85],"predict":[87],"edges":[89],"steady-state":[92],"alone,":[94],"while":[95],"algorithms":[96,125,164],"can":[100],"computationally":[102],"complex":[103],"more":[105],"involved.":[108],"Therefore,":[109],"non-symmetric":[110],"measures":[111],"such":[112],"\u03c6":[114],"mixing":[115],"coefficients":[116],"recently":[118],"proposed":[120],"literature.":[123],"The":[124],"these":[127],"techniques":[128],"are":[129,153,165,174],"also":[130,166],"discussed":[131],"article.":[134],"Estimation":[135],"of":[136,146,162,171],"information-theoretic":[137],"metrics":[138,151],"explained":[140],"which":[141],"core":[144],"component":[145],"all":[147],"methods.":[149],"Performance":[150],"that":[152],"frequently":[154],"test":[157],"robustness":[159],"accuracy":[161],"described":[167],"some":[169],"avenues":[170],"future":[172],"research":[173],"proposed.":[175]},"counts_by_year":[{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":5}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
