{"id":"https://openalex.org/W1971372095","doi":"https://doi.org/10.1109/iccabs.2014.6863914","title":"Putting humpty-dumpty together: Mining causal mechanistic biochemical models from big data","display_name":"Putting humpty-dumpty together: Mining causal mechanistic biochemical models from big data","publication_year":2014,"publication_date":"2014-06-01","ids":{"openalex":"https://openalex.org/W1971372095","doi":"https://doi.org/10.1109/iccabs.2014.6863914","mag":"1971372095"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2014.6863914","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2014.6863914","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE 4th International Conference on Computational Advances in Bio and Medical Sciences (ICCABS)","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://stars.library.ucf.edu/scopus2010/7939","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081485727","display_name":"Faraz Hussain","orcid":"https://orcid.org/0000-0001-8971-1850"},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Faraz Hussain","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA","institution_ids":["https://openalex.org/I106165777"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067109059","display_name":"Alvaro Velasquez","orcid":"https://orcid.org/0000-0001-6757-105X"},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alvaro Velasquez","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA","institution_ids":["https://openalex.org/I106165777"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049151118","display_name":"Emily Sassano","orcid":null},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Emily Sassano","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA","institution_ids":["https://openalex.org/I106165777"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075978538","display_name":"Sumit Kumar Jha","orcid":"https://orcid.org/0000-0003-0354-2940"},"institutions":[{"id":"https://openalex.org/I106165777","display_name":"University of Central Florida","ror":"https://ror.org/036nfer12","country_code":"US","type":"education","lineage":["https://openalex.org/I106165777"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sumit Kumar Jha","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL","institution_ids":["https://openalex.org/I106165777"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, USA","institution_ids":["https://openalex.org/I106165777"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I106165777"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.076062,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"40","issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9948999881744385,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9948999881744385,"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/T10317","display_name":"Advanced Database Systems and Queries","score":0.9904000163078308,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9879000186920166,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7445845603942871},{"id":"https://openalex.org/keywords/causality","display_name":"Causality (physics)","score":0.6487978100776672},{"id":"https://openalex.org/keywords/trace","display_name":"TRACE (psycholinguistics)","score":0.6467849016189575},{"id":"https://openalex.org/keywords/constraint","display_name":"Constraint (computer-aided design)","score":0.6453340649604797},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6428477168083191},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.5930104851722717},{"id":"https://openalex.org/keywords/causal-model","display_name":"Causal model","score":0.5228529572486877},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.40655961632728577},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.38477715849876404},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.36794471740722656},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3234744668006897},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.12124407291412354},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1182796061038971},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.11202189326286316},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08831837773323059}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7445845603942871},{"id":"https://openalex.org/C64357122","wikidata":"https://www.wikidata.org/wiki/Q1149766","display_name":"Causality (physics)","level":2,"score":0.6487978100776672},{"id":"https://openalex.org/C75291252","wikidata":"https://www.wikidata.org/wiki/Q1315756","display_name":"TRACE (psycholinguistics)","level":2,"score":0.6467849016189575},{"id":"https://openalex.org/C2776036281","wikidata":"https://www.wikidata.org/wiki/Q48769818","display_name":"Constraint (computer-aided design)","level":2,"score":0.6453340649604797},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6428477168083191},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.5930104851722717},{"id":"https://openalex.org/C11671645","wikidata":"https://www.wikidata.org/wiki/Q5054567","display_name":"Causal model","level":2,"score":0.5228529572486877},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.40655961632728577},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38477715849876404},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.36794471740722656},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3234744668006897},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.12124407291412354},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1182796061038971},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.11202189326286316},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08831837773323059},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/iccabs.2014.6863914","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2014.6863914","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE 4th International Conference on Computational Advances in Bio and Medical Sciences (ICCABS)","raw_type":"proceedings-article"},{"id":"pmh:oai:stars.library.ucf.edu:scopus2010-8938","is_oa":true,"landing_page_url":"https://stars.library.ucf.edu/scopus2010/7939","pdf_url":null,"source":{"id":"https://openalex.org/S4210172555","display_name":"Journal of International Crisis and Risk Communication Research","issn_l":"2576-0017","issn":["2576-0017","2576-0025"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus Export 2010-2014","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.642.1341","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.642.1341","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.eecs.ucf.edu/~fhussain/pubs/causality_iccabs2014.pdf","raw_type":"text"}],"best_oa_location":{"id":"pmh:oai:stars.library.ucf.edu:scopus2010-8938","is_oa":true,"landing_page_url":"https://stars.library.ucf.edu/scopus2010/7939","pdf_url":null,"source":{"id":"https://openalex.org/S4210172555","display_name":"Journal of International Crisis and Risk Communication Research","issn_l":"2576-0017","issn":["2576-0017","2576-0025"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus Export 2010-2014","raw_type":"text"},"sustainable_development_goals":[{"score":0.6700000166893005,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W373407302","https://openalex.org/W1926206757","https://openalex.org/W2005530589","https://openalex.org/W2065394549","https://openalex.org/W2099008734","https://openalex.org/W2106439532","https://openalex.org/W2110920860","https://openalex.org/W2113248059","https://openalex.org/W2113762408","https://openalex.org/W2133441575","https://openalex.org/W2145688713","https://openalex.org/W2155780258","https://openalex.org/W2157390113","https://openalex.org/W2157469798","https://openalex.org/W2159595840","https://openalex.org/W2162227979","https://openalex.org/W2520858206","https://openalex.org/W2597752301","https://openalex.org/W2997961747","https://openalex.org/W3146166473","https://openalex.org/W6640293377"],"related_works":["https://openalex.org/W17155033","https://openalex.org/W3207760230","https://openalex.org/W2018580387","https://openalex.org/W4312269093","https://openalex.org/W3170261037","https://openalex.org/W3135588948","https://openalex.org/W4210420802","https://openalex.org/W2987568073","https://openalex.org/W2574301230","https://openalex.org/W2265587781"],"abstract_inverted_index":{"In":[0,26,54],"traditional":[1],"engineering":[2],"disciplines,":[3],"the":[4,19,22,34,100],"construction":[5],"of":[6,18,21,33,45,71,90,102],"a":[7,13,30,59,108],"system":[8,23],"is":[9,39],"usually":[10,40],"preceded":[11],"by":[12],"formal":[14,60],"or":[15],"informal":[16],"specification":[17,32],"design":[20],"being":[24],"developed.":[25],"biochemical":[27,46,72,123],"applications,":[28],"however,":[29],"detailed":[31],"system's":[35],"structure":[36],"and":[37,83,98,114],"dynamics":[38],"unavailable.":[41],"Thus,":[42],"mechanistic":[43,66],"details":[44],"systems":[47],"must":[48],"be":[49],"mined":[50,75],"from":[51,68,95],"experimental":[52],"observations.":[53],"this":[55],"paper,":[56],"we":[57],"adopt":[58],"methods":[61],"approach":[62],"towards":[63],"deriving":[64],"causal":[65,86],"models":[67],"time-series":[69],"observations":[70],"systems.":[73],"The":[74],"model":[76],"captures":[77,117],"causality":[78,112],"among":[79,120],"multiple":[80],"biological":[81],"events":[82],"also":[84],"allows":[85],"relationships":[87,119],"between":[88],"sets":[89],"events.":[91],"We":[92],"exploit":[93],"results":[94],"trace":[96],"theory":[97],"use":[99],"power":[101],"powerful":[103],"constraint":[104],"solvers":[105],"to":[106],"develop":[107],"new":[109],"framework":[110],"for":[111],"identification":[113],"reasoning":[115],"that":[116],"dynamic":[118],"species":[121],"in":[122],"reaction":[124],"networks.":[125]},"counts_by_year":[],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}