{"id":"https://openalex.org/W2564769250","doi":"https://doi.org/10.1093/bioinformatics/btw731","title":"Recon2Neo4j: applying graph database technologies for managing comprehensive genome-scale networks","display_name":"Recon2Neo4j: applying graph database technologies for managing comprehensive genome-scale networks","publication_year":2016,"publication_date":"2016-11-16","ids":{"openalex":"https://openalex.org/W2564769250","doi":"https://doi.org/10.1093/bioinformatics/btw731","mag":"2564769250","pmid":"https://pubmed.ncbi.nlm.nih.gov/27993779"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw731","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw731","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1096/25149878/btw731.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1096/25149878/btw731.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071459650","display_name":"Irina Balaur","orcid":"https://orcid.org/0000-0002-3671-895X"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4387930247","display_name":"European Institute for Systems Biology and Medicine","ror":"https://ror.org/04f927797","country_code":null,"type":"nonprofit","lineage":["https://openalex.org/I4387930247"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Irina Balaur","raw_affiliation_strings":["European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I4387930247"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044361124","display_name":"Alexander Mazein","orcid":"https://orcid.org/0000-0001-7137-4171"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4387930247","display_name":"European Institute for Systems Biology and Medicine","ror":"https://ror.org/04f927797","country_code":null,"type":"nonprofit","lineage":["https://openalex.org/I4387930247"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Alexander Mazein","raw_affiliation_strings":["European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I4387930247"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068307947","display_name":"Mansoor Saqi","orcid":"https://orcid.org/0000-0003-1222-475X"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4387930247","display_name":"European Institute for Systems Biology and Medicine","ror":"https://ror.org/04f927797","country_code":null,"type":"nonprofit","lineage":["https://openalex.org/I4387930247"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Mansoor Saqi","raw_affiliation_strings":["European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I4387930247"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068144584","display_name":"Artem Lysenko","orcid":"https://orcid.org/0000-0002-1441-0604"},"institutions":[{"id":"https://openalex.org/I2799553609","display_name":"Rothamsted Research","ror":"https://ror.org/0347fy350","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2799553609","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Artem Lysenko","raw_affiliation_strings":["Rothamsted Research, Harpenden, West Common, Hertfordshire, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Rothamsted Research, Harpenden, West Common, Hertfordshire, UK","institution_ids":["https://openalex.org/I2799553609"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038901466","display_name":"Chris Rawlings","orcid":"https://orcid.org/0000-0003-3702-1633"},"institutions":[{"id":"https://openalex.org/I2799553609","display_name":"Rothamsted Research","ror":"https://ror.org/0347fy350","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2799553609","https://openalex.org/I2799693246","https://openalex.org/I4210087105"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Christopher J Rawlings","raw_affiliation_strings":["Rothamsted Research, Harpenden, West Common, Hertfordshire, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Rothamsted Research, Harpenden, West Common, Hertfordshire, UK","institution_ids":["https://openalex.org/I2799553609"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5055008823","display_name":"Charles Auffray","orcid":"https://orcid.org/0000-0003-2226-7411"},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4387930247","display_name":"European Institute for Systems Biology and Medicine","ror":"https://ror.org/04f927797","country_code":null,"type":"nonprofit","lineage":["https://openalex.org/I4387930247"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Charles Auffray","raw_affiliation_strings":["European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Institute for Systems Biology and Medicine (EISBM), CIRI CNRS UMR, CNRS-ENS-UCBL-INSERM, Lyon, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I4387930247"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5071459650"],"corresponding_institution_ids":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4387930247"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.7411,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":{"value":0.85417057,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"33","issue":"7","first_page":"1096","last_page":"1098"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9567999839782715,"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":0.9567999839782715,"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/T12292","display_name":"Graph Theory and Algorithms","score":0.006200000178068876,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.00559999980032444,"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/sbml","display_name":"SBML","score":0.9623359441757202},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8783674240112305},{"id":"https://openalex.org/keywords/json","display_name":"JSON","score":0.7051538825035095},{"id":"https://openalex.org/keywords/markup-language","display_name":"Markup language","score":0.5235288143157959},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.501448392868042},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.4906381666660309},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4471670091152191},{"id":"https://openalex.org/keywords/graph-database","display_name":"Graph database","score":0.44697320461273193},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.34571224451065063},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.2639075517654419},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2512109875679016},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.20936483144760132},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.18553900718688965},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.16757741570472717}],"concepts":[{"id":"https://openalex.org/C87186988","wikidata":"https://www.wikidata.org/wiki/Q452197","display_name":"SBML","level":4,"score":0.9623359441757202},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8783674240112305},{"id":"https://openalex.org/C2780416260","wikidata":"https://www.wikidata.org/wiki/Q2063","display_name":"JSON","level":2,"score":0.7051538825035095},{"id":"https://openalex.org/C45874996","wikidata":"https://www.wikidata.org/wiki/Q37045","display_name":"Markup language","level":3,"score":0.5235288143157959},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.501448392868042},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.4906381666660309},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4471670091152191},{"id":"https://openalex.org/C176225458","wikidata":"https://www.wikidata.org/wiki/Q595971","display_name":"Graph database","level":3,"score":0.44697320461273193},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.34571224451065063},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.2639075517654419},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2512109875679016},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.20936483144760132},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.18553900718688965},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.16757741570472717},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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},{"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":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btw731","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw731","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1096/25149878/btw731.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27993779","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27993779","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5408918","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5408918","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw731","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw731","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1096/25149878/btw731.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2014059278","display_name":"From data to knowledge / the ONDEX System for integrating Life Sciences data sources","funder_award_id":"BB/F006039/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G2633328597","display_name":null,"funder_award_id":"BB/F006039/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G3829048491","display_name":null,"funder_award_id":"FP7/2007-2013","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3971285033","display_name":null,"funder_award_id":"115446","funder_id":"https://openalex.org/F4320326631","funder_display_name":"Innovative Medicines Initiative"},{"id":"https://openalex.org/G4697817625","display_name":"QTLNetMiner: Mining Candidate Gene Networks From Genetic Studies of Crops and Animals","funder_award_id":"BB/I023860/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4839539168","display_name":"Delivering  European Translational Information & Knowledge Management Services","funder_award_id":"115446","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5199557389","display_name":null,"funder_award_id":"BB/I023860/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5593277320","display_name":null,"funder_award_id":"2007-2013","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5702163051","display_name":null,"funder_award_id":"FP7/2007","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5896075588","display_name":null,"funder_award_id":"BBS/E/C/000I0210","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G7195248210","display_name":null,"funder_award_id":"FP7/2007-2013","funder_id":"https://openalex.org/F4320326631","funder_display_name":"Innovative Medicines Initiative"},{"id":"https://openalex.org/G7364720146","display_name":null,"funder_award_id":"FP7/2007-2013","funder_id":"https://openalex.org/F4320314178","funder_display_name":"European Federation of Pharmaceutical Industries and Associations"},{"id":"https://openalex.org/G7385415109","display_name":"DFW - Designing Future Wheat - Work package 4 (WP4) - Data access and analysis","funder_award_id":"BBS/E/C/000I0210","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8290710666","display_name":null,"funder_award_id":"BBS/E/C/00004655","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320310700","display_name":"Universit\u00e9 du Luxembourg","ror":"https://ror.org/036x5ad56"},{"id":"https://openalex.org/F4320314178","display_name":"European Federation of Pharmaceutical Industries and Associations","ror":"https://ror.org/00g1x4v36"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320326631","display_name":"Innovative Medicines Initiative","ror":"https://ror.org/019af4n30"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2564769250.pdf","grobid_xml":"https://content.openalex.org/works/W2564769250.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1871096589","https://openalex.org/W2038264484","https://openalex.org/W2132218677","https://openalex.org/W2138326194","https://openalex.org/W2150908245","https://openalex.org/W2153349010","https://openalex.org/W2155142785","https://openalex.org/W2162144833","https://openalex.org/W2496792076"],"related_works":["https://openalex.org/W2082621456","https://openalex.org/W2150908245","https://openalex.org/W2981332207","https://openalex.org/W2159912904","https://openalex.org/W2211443823","https://openalex.org/W2100525485","https://openalex.org/W2040642413","https://openalex.org/W3048335229","https://openalex.org/W2146744007","https://openalex.org/W2890725831"],"abstract_inverted_index":{"Summary:":[0],"The":[1,74,130,140],"goal":[2],"of":[3,45,50,80,90,93],"this":[4,36,146],"work":[5,147],"is":[6,134],"to":[7,65,102,118],"offer":[8],"a":[9],"computational":[10],"framework":[11,77,133],"for":[12,54,145],"exploring":[13],"data":[14,87,161],"from":[15,150],"the":[16,30,46,51,66,108,151],"Recon2":[17],"human":[18,85],"metabolic":[19,76,86,91,132],"reconstruction":[20],"model.":[21],"Advanced":[22],"user":[23],"access":[24],"features":[25,40],"have":[26],"been":[27,100],"developed":[28,101,144],"using":[29],"Neo4j":[31],"graph":[32],"database":[33],"technology":[34],"and":[35,58,83,88,113,128],"paper":[37],"describes":[38],"key":[39],"such":[41],"as":[42],"efficient":[43],"management":[44],"network":[47,52,125],"data,":[48],"examples":[49],"querying":[53],"addressing":[55],"particular":[56],"tasks,":[57],"how":[59],"query":[60,104],"results":[61,105,121],"are":[62,148,162],"converted":[63],"back":[64],"Systems":[67],"Biology":[68],"Markup":[69],"Language":[70],"(SBML)":[71],"standard":[72],"format.":[73],"Neo4j-based":[75,131],"facilitates":[78],"exploration":[79],"highly":[81],"connected":[82],"comprehensive":[84],"identification":[89],"subnetworks":[92],"interest.":[94],"A":[95],"Java-based":[96],"parser":[97],"component":[98],"has":[99],"convert":[103],"(available":[106],"in":[107,116],"JSON":[109],"format)":[110],"into":[111],"SBML":[112],"SIF":[114],"formats":[115],"order":[117],"facilitate":[119],"further":[120],"exploration,":[122],"enhancement":[123],"or":[124],"sharing.":[126],"Availability":[127],"Implementation:":[129],"freely":[135],"available":[136,149,163],"from:":[137],"https://diseaseknowledgebase.etriks.org/metabolic/browser/":[138],".":[139,155],"java":[141],"code":[142],"files":[143],"following":[152],"url:":[153],"https://github.com/ibalaur/MetabolicFramework":[154],"Contact:":[156],"ibalaur@eisbm.org.":[157],"Supplementary":[158,160],"information:":[159],"at":[164],"Bioinformatics":[165],"online.":[166]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
