{"id":"https://openalex.org/W2090020814","doi":"https://doi.org/10.1186/1752-0509-3-58","title":"ChemChains: a platform for simulation and analysis of biochemical networks aimed to laboratory scientists","display_name":"ChemChains: a platform for simulation and analysis of biochemical networks aimed to laboratory scientists","publication_year":2009,"publication_date":"2009-06-06","ids":{"openalex":"https://openalex.org/W2090020814","doi":"https://doi.org/10.1186/1752-0509-3-58","mag":"2090020814","pmid":"https://pubmed.ncbi.nlm.nih.gov/19500393"},"language":"en","primary_location":{"id":"doi:10.1186/1752-0509-3-58","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-58","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-58","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-58","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073371703","display_name":"Tom\u00e1\u0161 Helikar","orcid":"https://orcid.org/0000-0003-3653-1906"},"institutions":[{"id":"https://openalex.org/I1307117695","display_name":"Nebraska Medical Center","ror":"https://ror.org/03azxga02","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1307117695"]},{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tom\u00e1\u0161 Helikar","raw_affiliation_strings":["Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, NE 68198, USA. thelika@unmc.edu","Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, NE 68198, USA. thelika@unmc.edu","institution_ids":["https://openalex.org/I1307117695","https://openalex.org/I59130452"]},{"raw_affiliation_string":"Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, USA","institution_ids":["https://openalex.org/I59130452"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112648342","display_name":"Jim Rogers","orcid":"https://orcid.org/0000-0001-9327-1245"},"institutions":[{"id":"https://openalex.org/I122266389","display_name":"University of Nebraska at Omaha","ror":"https://ror.org/04yrkc140","country_code":"US","type":"education","lineage":["https://openalex.org/I122266389"]},{"id":"https://openalex.org/I59130452","display_name":"University of Nebraska Medical Center","ror":"https://ror.org/00thqtb16","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I59130452"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jim A Rogers","raw_affiliation_strings":["Department of Mathematics, University of Nebraska, 6001 Dodge Street, Omaha, NE, 68182, USA","Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, NE, 68198, USA","Department of Mathematics, University of Nebraska, Omaha, USA","Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of Nebraska, 6001 Dodge Street, Omaha, NE, 68182, USA","institution_ids":["https://openalex.org/I122266389"]},{"raw_affiliation_string":"Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, NE, 68198, USA","institution_ids":["https://openalex.org/I59130452"]},{"raw_affiliation_string":"Department of Mathematics, University of Nebraska, Omaha, USA","institution_ids":["https://openalex.org/I122266389"]},{"raw_affiliation_string":"Department of Pathology and Microbiology, University of Nebraska Medical Center, 983135 Nebraska Medical Center, Omaha, USA","institution_ids":["https://openalex.org/I59130452"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5112648342"],"corresponding_institution_ids":["https://openalex.org/I122266389","https://openalex.org/I59130452"],"apc_list":{"value":2290,"currency":"USD","value_usd":2290},"apc_paid":{"value":2290,"currency":"USD","value_usd":2290},"fwci":1.3791,"has_fulltext":true,"cited_by_count":70,"citation_normalized_percentile":{"value":0.80110582,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"3","issue":"1","first_page":"58","last_page":"58"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8662999868392944,"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":0.8662999868392944,"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":0.02019999921321869,"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":0.015399999916553497,"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":0.7755203247070312},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6247758865356445},{"id":"https://openalex.org/keywords/modelling-biological-systems","display_name":"Modelling biological systems","score":0.5923196077346802},{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.5383738875389099},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.48846855759620667},{"id":"https://openalex.org/keywords/mathematical-model","display_name":"Mathematical model","score":0.4275904595851898},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.42283836007118225},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.4219881594181061},{"id":"https://openalex.org/keywords/modeling-and-simulation","display_name":"Modeling and simulation","score":0.41542309522628784},{"id":"https://openalex.org/keywords/component","display_name":"Component (thermodynamics)","score":0.41308704018592834},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3632025718688965},{"id":"https://openalex.org/keywords/simulation","display_name":"Simulation","score":0.18633413314819336},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1819835603237152},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.17349159717559814},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10282319784164429}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7755203247070312},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6247758865356445},{"id":"https://openalex.org/C137866125","wikidata":"https://www.wikidata.org/wiki/Q4299308","display_name":"Modelling biological systems","level":3,"score":0.5923196077346802},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.5383738875389099},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.48846855759620667},{"id":"https://openalex.org/C76969082","wikidata":"https://www.wikidata.org/wiki/Q486902","display_name":"Mathematical model","level":2,"score":0.4275904595851898},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.42283836007118225},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.4219881594181061},{"id":"https://openalex.org/C167343916","wikidata":"https://www.wikidata.org/wiki/Q6888384","display_name":"Modeling and simulation","level":2,"score":0.41542309522628784},{"id":"https://openalex.org/C168167062","wikidata":"https://www.wikidata.org/wiki/Q1117970","display_name":"Component (thermodynamics)","level":2,"score":0.41308704018592834},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3632025718688965},{"id":"https://openalex.org/C44154836","wikidata":"https://www.wikidata.org/wiki/Q45045","display_name":"Simulation","level":1,"score":0.18633413314819336},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1819835603237152},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.17349159717559814},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10282319784164429},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","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},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","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},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001330","descriptor_name":"Electronic Data Processing","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":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":true},{"descriptor_ui":"D007753","descriptor_name":"Laboratories","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007753","descriptor_name":"Laboratories","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007753","descriptor_name":"Laboratories","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":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012108","descriptor_name":"Research Personnel","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":"D018631","descriptor_name":"ras Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018631","descriptor_name":"ras Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018631","descriptor_name":"ras Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025461","descriptor_name":"Feedback, Physiological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025461","descriptor_name":"Feedback, Physiological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025461","descriptor_name":"Feedback, Physiological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1752-0509-3-58","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-58","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-58","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:19500393","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19500393","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":"BMC systems biology","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2705353","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2705353","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Syst Biol","raw_type":"Text"},{"id":"pmh:oai:digitalcommons.unl.edu:biochemfacpub-1344","is_oa":true,"landing_page_url":"https://digitalcommons.unl.edu/biochemfacpub/355","pdf_url":null,"source":{"id":"https://openalex.org/S4306400577","display_name":"Lincoln (University of Nebraska)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114395901","host_organization_name":"University of Nebraska\u2013Lincoln","host_organization_lineage":["https://openalex.org/I114395901"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Department of Biochemistry: Faculty Publications","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1186/1752-0509-3-58","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-58","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-58","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1532678077","display_name":null,"funder_award_id":"GM067272","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7592994795","display_name":null,"funder_award_id":"R01 GM067272","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2090020814.pdf","grobid_xml":"https://content.openalex.org/works/W2090020814.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1489737525","https://openalex.org/W1544455702","https://openalex.org/W1677575702","https://openalex.org/W1965097080","https://openalex.org/W1970054115","https://openalex.org/W1978486653","https://openalex.org/W1991980854","https://openalex.org/W2022333738","https://openalex.org/W2034510362","https://openalex.org/W2058221907","https://openalex.org/W2069233518","https://openalex.org/W2092755129","https://openalex.org/W2105291362","https://openalex.org/W2109975391","https://openalex.org/W2112656672","https://openalex.org/W2117364474","https://openalex.org/W2120792230","https://openalex.org/W2122837918","https://openalex.org/W2124082948","https://openalex.org/W2127020923","https://openalex.org/W2131067724","https://openalex.org/W2143784594","https://openalex.org/W2150908245","https://openalex.org/W2156768230","https://openalex.org/W2411397943","https://openalex.org/W2944782266","https://openalex.org/W4388252848"],"related_works":["https://openalex.org/W4386563820","https://openalex.org/W631732704","https://openalex.org/W2155261113","https://openalex.org/W2064988479","https://openalex.org/W1748979965","https://openalex.org/W3199870583","https://openalex.org/W4254550161","https://openalex.org/W1497779830","https://openalex.org/W2057769265","https://openalex.org/W1968058641"],"abstract_inverted_index":{"BACKGROUND:":[0],"New":[1],"mathematical":[2,24,57,179],"models":[3,36,105,116,136,180],"of":[4,34,99,103,143,145,161,185],"complex":[5],"biological":[6],"structures":[7],"and":[8,16,22,37,46,60,90,163,166],"computer":[9],"simulation":[10,61,89],"software":[11,38,92],"allow":[12],"modelers":[13],"to":[14,27,42,66,79,112,122,134,173],"simulate":[15,135],"analyze":[17],"biochemical":[18],"systems":[19,190],"in":[20,73,117,137,175,188],"silico":[21,176],"form":[23],"predictions.":[25],"Due":[26],"this":[28],"potential":[29],"predictive":[30],"ability,":[31],"the":[32,40,55,97,100,108,123,159,189],"use":[33,67,78],"these":[35],"has":[39],"possibility":[41],"compliment":[43],"laboratory":[44,69,125,129,171,186],"investigations":[45],"help":[47],"refine,":[48],"or":[49],"even":[50],"develop,":[51],"new":[52],"hypotheses.":[53],"However,":[54],"existing":[56],"modeling":[58,165],"techniques":[59],"tools":[62],"are":[63],"often":[64],"difficult":[65],"by":[68],"biologists":[70,126,172],"without":[71],"training":[72],"high-level":[74],"mathematics,":[75],"limiting":[76],"their":[77,115],"trained":[80],"modelers.":[81],"RESULTS:":[82],"We":[83],"have":[84],"developed":[85],"a":[86,118,168,182],"Boolean":[87],"network-based":[88],"analysis":[91],"tool,":[93],"ChemChains,":[94],"which":[95],"combines":[96,158],"advantages":[98,160],"parameter-free":[101],"nature":[102],"logical":[104,162],"while":[106],"providing":[107],"ability":[109],"for":[110,170],"users":[111,133],"interact":[113,127],"with":[114,128],"continuous":[119,164],"manner,":[120],"similar":[121],"way":[124,169],"data.":[130],"ChemChains":[131,157],"allows":[132],"an":[138],"automatic":[139],"fashion":[140],"under":[141],"tens":[142],"thousands":[144],"different":[146],"external":[147],"environments,":[148],"as":[149,151],"well":[150],"perform":[152,174],"various":[153],"mutational":[154],"studies.":[155],"CONCLUSION:":[156],"provides":[167],"experiments":[177],"on":[178],"easily,":[181],"necessary":[183],"component":[184],"research":[187],"biology":[191],"era.":[192]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":16},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":9},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":8}],"updated_date":"2026-08-25T07:29:55.448023","created_date":"2025-10-10T00:00:00"}
