{"id":"https://openalex.org/W1978435670","doi":"https://doi.org/10.1186/1752-0509-6-67","title":"PathCase-SB: integrating data sources and providing tools for systems biology research","display_name":"PathCase-SB: integrating data sources and providing tools for systems biology research","publication_year":2012,"publication_date":"2012-06-14","ids":{"openalex":"https://openalex.org/W1978435670","doi":"https://doi.org/10.1186/1752-0509-6-67","mag":"1978435670","pmid":"https://pubmed.ncbi.nlm.nih.gov/22697505"},"language":"en","primary_location":{"id":"doi:10.1186/1752-0509-6-67","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-6-67","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-6-67","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","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-6-67","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034533391","display_name":"Sarp A Coskun","orcid":null},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarp A Coskun","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100913092","display_name":"Xinjian Qi","orcid":null},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xinjian Qi","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035836413","display_name":"Ali Cakmak","orcid":"https://orcid.org/0000-0002-1382-6130"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ali Cakmak","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102955441","display_name":"En Cheng","orcid":"https://orcid.org/0000-0002-4777-2468"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"En Cheng","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090836372","display_name":"A. Erc\u00fcment \u00c7i\u00e7ek","orcid":"https://orcid.org/0000-0001-8613-6619"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A Ercument Cicek","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100738372","display_name":"Lei Yang","orcid":"https://orcid.org/0000-0002-1479-2374"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lei Yang","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033960540","display_name":"Rishiraj Jadeja","orcid":null},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rishiraj Jadeja","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061756444","display_name":"Ranjan K. Dash","orcid":"https://orcid.org/0000-0001-6751-0679"},"institutions":[{"id":"https://openalex.org/I204308271","display_name":"Medical College of Wisconsin","ror":"https://ror.org/00qqv6244","country_code":"US","type":"education","lineage":["https://openalex.org/I204308271"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ranjan K Dash","raw_affiliation_strings":["Department of Physiology, Medical College of Wisconsin, Milwaukee, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Physiology, Medical College of Wisconsin, Milwaukee, USA","institution_ids":["https://openalex.org/I204308271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084661497","display_name":"Nicola Lai","orcid":"https://orcid.org/0000-0002-3436-289X"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicola Lai","raw_affiliation_strings":["Department of Biomedical Engineering, Case Western Reserve University, Cleveland, USA","Department of Pediatrics, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]},{"raw_affiliation_string":"Department of Pediatrics, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016412404","display_name":"G\u00fcltekin \u00d6zsoyo\u011flu","orcid":null},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gultekin Ozsoyoglu","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013424429","display_name":"Z. Meral \u00d6zsoyo\u011flu","orcid":null},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zehra Meral Ozsoyoglu","raw_affiliation_strings":["Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering and Computer Science Department, Case Western Reserve University, Cleveland, USA","institution_ids":["https://openalex.org/I58956616"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5016412404"],"corresponding_institution_ids":["https://openalex.org/I58956616"],"apc_list":{"value":2290,"currency":"USD","value_usd":2290},"apc_paid":{"value":2290,"currency":"USD","value_usd":2290},"fwci":0.7364,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.67539713,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"6","issue":"1","first_page":"67","last_page":"67"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9847000241279602,"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":0.9847000241279602,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.003700000001117587,"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":0.00139999995008111,"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/systems-biology","display_name":"Systems biology","score":0.7698980569839478},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7408924698829651},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5789560079574585},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5122260451316833},{"id":"https://openalex.org/keywords/modelling-biological-systems","display_name":"Modelling biological systems","score":0.4942076504230499},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.4924376904964447},{"id":"https://openalex.org/keywords/sbml","display_name":"SBML","score":0.48260223865509033},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.47921305894851685},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4508230686187744},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.41117945313453674},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3132096827030182},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2225971519947052},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.20386368036270142},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16996818780899048},{"id":"https://openalex.org/keywords/markup-language","display_name":"Markup language","score":0.09801968932151794},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.09154903888702393}],"concepts":[{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.7698980569839478},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7408924698829651},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5789560079574585},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5122260451316833},{"id":"https://openalex.org/C137866125","wikidata":"https://www.wikidata.org/wiki/Q4299308","display_name":"Modelling biological systems","level":3,"score":0.4942076504230499},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.4924376904964447},{"id":"https://openalex.org/C87186988","wikidata":"https://www.wikidata.org/wiki/Q452197","display_name":"SBML","level":4,"score":0.48260223865509033},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.47921305894851685},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4508230686187744},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.41117945313453674},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3132096827030182},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2225971519947052},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.20386368036270142},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16996818780899048},{"id":"https://openalex.org/C45874996","wikidata":"https://www.wikidata.org/wiki/Q37045","display_name":"Markup language","level":3,"score":0.09801968932151794},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.09154903888702393}],"mesh":[{"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":"D006019","descriptor_name":"Glycolysis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D006019","descriptor_name":"Glycolysis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D006019","descriptor_name":"Glycolysis","qualifier_ui":"Q000502","qualifier_name":"physiology","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},{"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","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":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1752-0509-6-67","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-6-67","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-6-67","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:22697505","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22697505","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":null},{"id":"pmh:oai:doaj.org/article:9f80d3817d194b609ff9e9f5c50baf16","is_oa":false,"landing_page_url":"https://doaj.org/article/9f80d3817d194b609ff9e9f5c50baf16","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"BMC Systems Biology, Vol 6, Iss 1, p 67 (2012)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2416591","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3410775","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:iris.unica.it:11584/278868","is_oa":true,"landing_page_url":"http://hdl.handle.net/11584/278868","pdf_url":null,"source":{"id":"https://openalex.org/S4377196293","display_name":"UNICA IRIS Institutional Research Information System (University of Cagliari)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I172446870","host_organization_name":"University of Cagliari","host_organization_lineage":["https://openalex.org/I172446870"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1186/1752-0509-6-67","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-6-67","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-6-67","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":[{"score":0.4099999964237213,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G1245891105","display_name":null,"funder_award_id":"GM088823","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1846124065","display_name":null,"funder_award_id":"DBI 0849956","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G377211275","display_name":"A Web-Based Data Source for Metabolomics Analysis","funder_award_id":"0849956","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4990787439","display_name":null,"funder_award_id":"CRI 0551603","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5173077141","display_name":"Database-Enabled Tools for Regulatory Metabolic Networks","funder_award_id":"0743705","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6727188481","display_name":"CRI: Infrastructure for Managing and Analyzing Large Scale Biological Data via Utility Computing","funder_award_id":"0551603","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7678081043","display_name":null,"funder_award_id":"GM088823","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8557371565","display_name":null,"funder_award_id":"DBI 0743705","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"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/W1978435670.pdf","grobid_xml":"https://content.openalex.org/works/W1978435670.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W195157153","https://openalex.org/W591251348","https://openalex.org/W1495660511","https://openalex.org/W1524639827","https://openalex.org/W1552694902","https://openalex.org/W1588865119","https://openalex.org/W1594613389","https://openalex.org/W1975385846","https://openalex.org/W2002561885","https://openalex.org/W2012849096","https://openalex.org/W2022858952","https://openalex.org/W2038264484","https://openalex.org/W2104108767","https://openalex.org/W2107062718","https://openalex.org/W2110762994","https://openalex.org/W2114124738","https://openalex.org/W2120599990","https://openalex.org/W2124236793","https://openalex.org/W2126025430","https://openalex.org/W2127279146","https://openalex.org/W2133938042","https://openalex.org/W2134221731","https://openalex.org/W2136970290","https://openalex.org/W2150386276","https://openalex.org/W2153131751","https://openalex.org/W2155967165","https://openalex.org/W2159482845","https://openalex.org/W2163841023","https://openalex.org/W2165674132","https://openalex.org/W2171437346","https://openalex.org/W2171926758","https://openalex.org/W2187198735","https://openalex.org/W2441893520","https://openalex.org/W2604103030","https://openalex.org/W4239685621","https://openalex.org/W4252768052","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W2216418212","https://openalex.org/W2020641517","https://openalex.org/W2075919068","https://openalex.org/W3080133182","https://openalex.org/W2026725606","https://openalex.org/W2735157934","https://openalex.org/W2133150343","https://openalex.org/W2097410126","https://openalex.org/W2115343689","https://openalex.org/W2211443823"],"abstract_inverted_index":{"BACKGROUND:":[0],"Integration":[1],"of":[2,33,39,104,122,152],"metabolic":[3,7,34,48,119],"pathways":[4],"resources":[5],"and":[6,10,23,50,53,61,65,77,96,118,133,136,162,167,184],"network":[8,120],"models,":[9,52],"deploying":[11],"new":[12,142,146,168],"tools":[13,56,99],"on":[14,29,127,181],"the":[15,31,37,102,128,145,153,173,182,190],"integrated":[16],"platform":[17],"can":[18],"help":[19,58],"perform":[20],"more":[21,24,139],"effective":[22],"efficient":[25],"systems":[26,114],"biology":[27,115],"research":[28],"understanding":[30],"regulation":[32],"networks.":[35],"Therefore,":[36],"tasks":[38],"(a)":[40],"integrating":[41],"under":[42],"a":[43,93],"single":[44],"database":[45],"environment":[46],"regulatory":[47],"networks":[49],"existing":[51],"(b)":[54],"building":[55],"to":[57,86,112,137],"with":[59,172],"modeling":[60],"analysis":[62],"are":[63],"desirable":[64],"intellectually":[66],"challenging":[67],"computational":[68,98],"tasks.":[69],"RESULTS:":[70],"PathCase":[71],"Systems":[72],"Biology":[73],"(PathCase-SB)":[74],"is":[75,178],"built":[76],"released.":[78],"This":[79],"paper":[80],"describes":[81],"PathCase-SB":[82,90,110,156,177],"user":[83],"interfaces":[84],"developed":[85],"date.":[87],"The":[88],"current":[89,154],"system":[91],"provides":[92],"database-enabled":[94],"framework":[95],"web-based":[97,147],"towards":[100],"facilitating":[101],"development":[103],"kinetic":[105],"models":[106,116],"for":[107],"biological":[108,124],"systems.":[109],"aims":[111],"integrate":[113],"data":[117,121,125,175],"selected":[123],"sources":[126],"web":[129,183],"(currently,":[130],"BioModels":[131],"Database":[132],"KEGG,":[134],"respectively),":[135],"provide":[138],"powerful":[140],"and/or":[141],"capabilities":[143,169],"via":[144],"integrative":[148],"framework.":[149],"CONCLUSIONS:":[150],"Each":[151],"four":[155],"interfaces,":[157,164],"namely,":[158],"Browser,":[159],"Visualization,":[160],"Querying,":[161],"Simulation":[163],"have":[165],"expanded":[166],"as":[170],"compared":[171],"original":[174],"sources.":[176],"already":[179],"available":[180],"being":[185],"used":[186],"by":[187],"researchers":[188],"across":[189],"globe.":[191]},"counts_by_year":[{"year":2019,"cited_by_count":2},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":2}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}