{"id":"https://openalex.org/W2021713927","doi":"https://doi.org/10.1142/s0219720012310014","title":"MODELING AND ANALYSIS OF BIOPATHWAYS DYNAMICS","display_name":"MODELING AND ANALYSIS OF BIOPATHWAYS DYNAMICS","publication_year":2012,"publication_date":"2012-04-04","ids":{"openalex":"https://openalex.org/W2021713927","doi":"https://doi.org/10.1142/s0219720012310014","mag":"2021713927","pmid":"https://pubmed.ncbi.nlm.nih.gov/22809413"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720012310014","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720012310014","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","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/A5043819328","display_name":"Bing Liu","orcid":"https://orcid.org/0000-0002-7257-2441"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"BING LIU","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Computing 1, 13 Computing Drive, Singapore 117417, Singapore"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Computing 1, 13 Computing Drive, Singapore 117417, Singapore","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111462984","display_name":"P. S. Thiagarajan","orcid":null},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"P. S. THIAGARAJAN","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Computing 1, 13 Computing Drive, Singapore 117417, Singapore"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Computing 1, 13 Computing Drive, Singapore 117417, Singapore","institution_ids":["https://openalex.org/I165932596"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5043819328"],"corresponding_institution_ids":["https://openalex.org/I165932596"],"apc_list":null,"apc_paid":null,"fwci":0.6567,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.67298868,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"10","issue":"04","first_page":"1231001","last_page":"1231001"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9993000030517578,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9961000084877014,"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/ordinary-differential-equation","display_name":"Ordinary differential equation","score":0.6733840703964233},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6369849443435669},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6289868950843811},{"id":"https://openalex.org/keywords/ode","display_name":"Ode","score":0.5710750222206116},{"id":"https://openalex.org/keywords/focus","display_name":"Focus (optics)","score":0.5235726237297058},{"id":"https://openalex.org/keywords/dynamics","display_name":"Dynamics (music)","score":0.506892740726471},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.4872649908065796},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.4786149859428406},{"id":"https://openalex.org/keywords/network-dynamics","display_name":"Network dynamics","score":0.4250427782535553},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.33311712741851807},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.328645795583725},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.28177410364151},{"id":"https://openalex.org/keywords/differential-equation","display_name":"Differential equation","score":0.27810895442962646},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2576572597026825},{"id":"https://openalex.org/keywords/applied-mathematics","display_name":"Applied mathematics","score":0.13432800769805908},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13425591588020325},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.07764643430709839}],"concepts":[{"id":"https://openalex.org/C51544822","wikidata":"https://www.wikidata.org/wiki/Q465274","display_name":"Ordinary differential equation","level":3,"score":0.6733840703964233},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6369849443435669},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6289868950843811},{"id":"https://openalex.org/C34862557","wikidata":"https://www.wikidata.org/wiki/Q178985","display_name":"Ode","level":2,"score":0.5710750222206116},{"id":"https://openalex.org/C192209626","wikidata":"https://www.wikidata.org/wiki/Q190909","display_name":"Focus (optics)","level":2,"score":0.5235726237297058},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.506892740726471},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.4872649908065796},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.4786149859428406},{"id":"https://openalex.org/C123757187","wikidata":"https://www.wikidata.org/wiki/Q9195957","display_name":"Network dynamics","level":2,"score":0.4250427782535553},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.33311712741851807},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.328645795583725},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.28177410364151},{"id":"https://openalex.org/C78045399","wikidata":"https://www.wikidata.org/wiki/Q11214","display_name":"Differential equation","level":2,"score":0.27810895442962646},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2576572597026825},{"id":"https://openalex.org/C28826006","wikidata":"https://www.wikidata.org/wiki/Q33521","display_name":"Applied mathematics","level":1,"score":0.13432800769805908},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13425591588020325},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.07764643430709839},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.0},{"id":"https://openalex.org/C118615104","wikidata":"https://www.wikidata.org/wiki/Q121416","display_name":"Discrete mathematics","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001669","descriptor_name":"Biochemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001669","descriptor_name":"Biochemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001669","descriptor_name":"Biochemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1142/s0219720012310014","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720012310014","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:22809413","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22809413","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":"Journal of bioinformatics and computational biology","raw_type":null},{"id":"pmh:oai:scholarbank.nus.edu.sg:10635/39657","is_oa":false,"landing_page_url":"http://scholarbank.nus.edu.sg/handle/10635/39657","pdf_url":null,"source":{"id":"https://openalex.org/S7407052290","display_name":"National University of Singapore","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus","raw_type":"Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":119,"referenced_works":["https://openalex.org/W87983421","https://openalex.org/W100464641","https://openalex.org/W138443365","https://openalex.org/W386336003","https://openalex.org/W653950636","https://openalex.org/W1480692184","https://openalex.org/W1491585327","https://openalex.org/W1499965417","https://openalex.org/W1513194269","https://openalex.org/W1520566118","https://openalex.org/W1539499483","https://openalex.org/W1558736232","https://openalex.org/W1561267729","https://openalex.org/W1566900355","https://openalex.org/W1576660662","https://openalex.org/W1586735752","https://openalex.org/W1606147224","https://openalex.org/W1623155147","https://openalex.org/W1668041287","https://openalex.org/W1946177469","https://openalex.org/W1964036897","https://openalex.org/W1964037688","https://openalex.org/W1968519358","https://openalex.org/W1974272479","https://openalex.org/W1979892077","https://openalex.org/W1982528660","https://openalex.org/W1985911638","https://openalex.org/W1985937069","https://openalex.org/W1988383139","https://openalex.org/W1997774242","https://openalex.org/W2005998857","https://openalex.org/W2008715595","https://openalex.org/W2019264851","https://openalex.org/W2019403801","https://openalex.org/W2021089599","https://openalex.org/W2021872116","https://openalex.org/W2022604204","https://openalex.org/W2023808162","https://openalex.org/W2025266810","https://openalex.org/W2034269086","https://openalex.org/W2034562813","https://openalex.org/W2035991642","https://openalex.org/W2037689113","https://openalex.org/W2039931639","https://openalex.org/W2040860090","https://openalex.org/W2041226400","https://openalex.org/W2049105252","https://openalex.org/W2050826226","https://openalex.org/W2051959027","https://openalex.org/W2053379810","https://openalex.org/W2054779024","https://openalex.org/W2058221907","https://openalex.org/W2065549925","https://openalex.org/W2066322491","https://openalex.org/W2075161553","https://openalex.org/W2078027626","https://openalex.org/W2081076340","https://openalex.org/W2085826258","https://openalex.org/W2090896051","https://openalex.org/W2096595244","https://openalex.org/W2096842188","https://openalex.org/W2097571405","https://openalex.org/W2099640019","https://openalex.org/W2101589741","https://openalex.org/W2103838923","https://openalex.org/W2103937660","https://openalex.org/W2105437542","https://openalex.org/W2106629284","https://openalex.org/W2107062718","https://openalex.org/W2107510282","https://openalex.org/W2110575115","https://openalex.org/W2111510713","https://openalex.org/W2114870653","https://openalex.org/W2115547583","https://openalex.org/W2118039525","https://openalex.org/W2119284420","https://openalex.org/W2124149894","https://openalex.org/W2124630954","https://openalex.org/W2124810679","https://openalex.org/W2126841263","https://openalex.org/W2129935828","https://openalex.org/W2131250429","https://openalex.org/W2133569473","https://openalex.org/W2134991157","https://openalex.org/W2136648677","https://openalex.org/W2140484213","https://openalex.org/W2141771360","https://openalex.org/W2143046467","https://openalex.org/W2143883853","https://openalex.org/W2143894094","https://openalex.org/W2143979843","https://openalex.org/W2144063122","https://openalex.org/W2144588155","https://openalex.org/W2147714160","https://openalex.org/W2151339633","https://openalex.org/W2152195021","https://openalex.org/W2152710595","https://openalex.org/W2154767435","https://openalex.org/W2155418451","https://openalex.org/W2158622495","https://openalex.org/W2160214128","https://openalex.org/W2161304688","https://openalex.org/W2165603655","https://openalex.org/W2166565152","https://openalex.org/W2167543722","https://openalex.org/W2169169493","https://openalex.org/W2170507464","https://openalex.org/W2171112614","https://openalex.org/W2171594815","https://openalex.org/W2171720907","https://openalex.org/W2256578114","https://openalex.org/W2412839122","https://openalex.org/W2479580307","https://openalex.org/W2744090537","https://openalex.org/W3101324426","https://openalex.org/W4206542816","https://openalex.org/W4238726034","https://openalex.org/W4239403073","https://openalex.org/W4300945981"],"related_works":["https://openalex.org/W2517973022","https://openalex.org/W1543121148","https://openalex.org/W3082668976","https://openalex.org/W2618518959","https://openalex.org/W2231364979","https://openalex.org/W4295745414","https://openalex.org/W4382202915","https://openalex.org/W4288093367","https://openalex.org/W3093456297","https://openalex.org/W3006247779"],"abstract_inverted_index":{"Cellular":[0],"processes":[1],"are":[2],"governed":[3],"and":[4,38,48,76,80],"coordinated":[5],"by":[6],"a":[7,17,94],"multitude":[8],"of":[9,20,25,32,40,53,60],"biopathways.":[10],"A":[11],"pathway":[12],"can":[13,105],"be":[14,106],"viewed":[15],"as":[16],"complex":[18],"network":[19,27],"biochemical":[21,41,61],"reactions.":[22],"The":[23],"dynamics":[24,43],"this":[26,89],"largely":[28],"determines":[29],"the":[30,33,36,73,82],"functioning":[31],"pathway.":[34],"Hence":[35],"modeling":[37],"analysis":[39,78],"networks":[42,62],"is":[44,49],"an":[45,50],"important":[46],"problem":[47],"active":[51],"area":[52],"research.":[54],"Here":[55],"we":[56,91],"review":[57],"quantitative":[58],"models":[59],"based":[63],"on":[64,72],"ordinary":[65],"differential":[66],"equations":[67],"(ODEs).":[68],"We":[69],"mainly":[70],"focus":[71],"parameter":[74],"estimation":[75],"sensitivity":[77],"problems":[79,104],"survey":[81],"current":[83],"methods":[84],"for":[85],"tackling":[86],"them.":[87],"In":[88],"context":[90],"also":[92],"highlight":[93],"recently":[95],"developed":[96],"probabilistic":[97],"approximation":[98],"technique":[99],"using":[100],"which":[101],"these":[102],"two":[103],"considerably":[107],"simplified.":[108]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
