{"id":"https://openalex.org/W2134951387","doi":"https://doi.org/10.2390/biecoll-jib-2010-133","title":"Comparison of different algorithms for simultaneous estimation of multiple parameters in kinetic metabolic models","display_name":"Comparison of different algorithms for simultaneous estimation of multiple parameters in kinetic metabolic models","publication_year":2010,"publication_date":"2010-01-01","ids":{"openalex":"https://openalex.org/W2134951387","doi":"https://doi.org/10.2390/biecoll-jib-2010-133","mag":"2134951387","pmid":"https://pubmed.ncbi.nlm.nih.gov/20375457"},"language":"en","primary_location":{"id":"pmid:20375457","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20375457","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 integrative bioinformatics","raw_type":null},"type":"article","indexed_in":["datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.2390/biecoll-jib-2010-133","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021710415","display_name":"Syed Murtuza Baker","orcid":"https://orcid.org/0000-0002-6633-333X"},"institutions":[{"id":"https://openalex.org/I4210127902","display_name":"Leibniz-Institut f\u00fcr Pflanzengenetik und Kulturpflanzenforschung (IPK)","ror":"https://ror.org/02skbsp27","country_code":"DE","type":"facility","lineage":["https://openalex.org/I315704651","https://openalex.org/I4210127902"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Baker, Syed M.","raw_affiliation_strings":["Leibniz Institute of Plant Genetics and Crop Plant Research, Gatersleben 06466, Germany. baker@ipk-gatersleben.de"],"affiliations":[{"raw_affiliation_string":"Leibniz Institute of Plant Genetics and Crop Plant Research, Gatersleben 06466, Germany. baker@ipk-gatersleben.de","institution_ids":["https://openalex.org/I4210127902"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081779464","display_name":"Kai Schallau","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Schallau, Kai","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":null,"display_name":"Junker, Bjoern H.","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Junker, Bjoern H.","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5021710415"],"corresponding_institution_ids":["https://openalex.org/I4210127902"],"apc_list":null,"apc_paid":null,"fwci":2.3042,"has_fulltext":false,"cited_by_count":37,"citation_normalized_percentile":{"value":0.88265151,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"7","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9997000098228455,"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":0.9909999966621399,"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/benchmark","display_name":"Benchmark (surveying)","score":0.734658420085907},{"id":"https://openalex.org/keywords/estimation-theory","display_name":"Estimation theory","score":0.6401036977767944},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6231607794761658},{"id":"https://openalex.org/keywords/focus","display_name":"Focus (optics)","score":0.5754435658454895},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.5474295616149902},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4822019338607788},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.4813169240951538},{"id":"https://openalex.org/keywords/optimization-problem","display_name":"Optimization problem","score":0.45207712054252625},{"id":"https://openalex.org/keywords/kinetic-energy","display_name":"Kinetic energy","score":0.435726135969162},{"id":"https://openalex.org/keywords/estimation","display_name":"Estimation","score":0.41859549283981323},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2726200520992279}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.734658420085907},{"id":"https://openalex.org/C167928553","wikidata":"https://www.wikidata.org/wiki/Q1376021","display_name":"Estimation theory","level":2,"score":0.6401036977767944},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6231607794761658},{"id":"https://openalex.org/C192209626","wikidata":"https://www.wikidata.org/wiki/Q190909","display_name":"Focus (optics)","level":2,"score":0.5754435658454895},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.5474295616149902},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4822019338607788},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.4813169240951538},{"id":"https://openalex.org/C137836250","wikidata":"https://www.wikidata.org/wiki/Q984063","display_name":"Optimization problem","level":2,"score":0.45207712054252625},{"id":"https://openalex.org/C135889238","wikidata":"https://www.wikidata.org/wiki/Q46276","display_name":"Kinetic energy","level":2,"score":0.435726135969162},{"id":"https://openalex.org/C96250715","wikidata":"https://www.wikidata.org/wiki/Q965330","display_name":"Estimation","level":2,"score":0.41859549283981323},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2726200520992279},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","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/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007700","descriptor_name":"Kinetics","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":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"pmid:20375457","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20375457","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 integrative bioinformatics","raw_type":null},{"id":"pmh:oai:biecoll.ub.uni-bielefeld.de:5033","is_oa":false,"landing_page_url":"http://biecoll.ub.uni-bielefeld.de/volltexte/2010/5033/","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://journal.imbio.de/article.php?aid=133","raw_type":"Journal Article"},{"id":"doi:10.2390/biecoll-jib-2010-133","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2010-133","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.2390/biecoll-jib-2010-133","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2010-133","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W1499399028","https://openalex.org/W1512383952","https://openalex.org/W1517205876","https://openalex.org/W1600765471","https://openalex.org/W1606844664","https://openalex.org/W1982258483","https://openalex.org/W2017551827","https://openalex.org/W2024060531","https://openalex.org/W2102653059","https://openalex.org/W2109364787","https://openalex.org/W2165603655"],"related_works":["https://openalex.org/W2165603655","https://openalex.org/W2102653059","https://openalex.org/W1982258483","https://openalex.org/W21064061","https://openalex.org/W2170484057","https://openalex.org/W2115343689","https://openalex.org/W2044278781","https://openalex.org/W2152195021","https://openalex.org/W2129935828","https://openalex.org/W2011262079","https://openalex.org/W1509329028","https://openalex.org/W3208580942","https://openalex.org/W2760516132","https://openalex.org/W2046242151","https://openalex.org/W2948645098","https://openalex.org/W2917633319","https://openalex.org/W6289550","https://openalex.org/W3006537548","https://openalex.org/W2050814882","https://openalex.org/W2055711652"],"abstract_inverted_index":{"Computational":[0],"models":[1],"in":[2,64,81],"systems":[3],"biology":[4],"are":[5],"usually":[6],"characterized":[7],"by":[8],"a":[9,86,105,108,122],"lack":[10],"of":[11,61,72,78,93,102,111,135,139],"reliable":[12],"parameter":[13,62,79],"values.":[14],"This":[15],"is":[16,96,144],"especially":[17],"true":[18],"for":[19,150],"kinetic":[20,65],"metabolic":[21],"models.":[22,66],"Experimental":[23],"data":[24],"can":[25],"be":[26,49],"used":[27,75],"to":[28,39,48,51,104,119],"estimate":[29],"these":[30,152],"missing":[31],"parameters.":[32],"Different":[33],"optimization":[34,76,116,130],"techniques":[35,77],"have":[36],"been":[37],"explored":[38],"solve":[40],"this":[41,55],"challenging":[42],"task":[43],"but":[44],"none":[45],"has":[46],"proved":[47],"superior":[50],"the":[52,59,70,100,128,136,147],"other.":[53],"In":[54],"paper":[56],"we":[57,125],"review":[58],"problem":[60],"estimation":[63,80],"We":[67],"focus":[68],"on":[69,99],"suitability":[71,92],"four":[73],"commonly":[74],"biochemical":[82],"pathways":[83],"and":[84],"make":[85],"comparison":[87],"between":[88],"those":[89],"methods.":[90,153],"The":[91],"each":[94],"technique":[95],"evaluated":[97],"based":[98],"ability":[101],"converging":[103],"solution":[106,124],"within":[107],"reasonable":[109],"amount":[110],"time.":[112],"As":[113],"most":[114],"local":[115],"methods":[117],"fail":[118],"arrive":[120],"at":[121],"satisfactory":[123],"only":[126],"considered":[127],"global":[129],"techniques.":[131],"A":[132],"case":[133],"study":[134],"upper":[137],"part":[138],"Glycolysis":[140],"consisting":[141],"15":[142],"parameters":[143],"taken":[145],"as":[146],"benchmark":[148],"model":[149],"evaluating":[151]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":8},{"year":2012,"cited_by_count":4}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
