{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,2]],"date-time":"2025-12-02T15:22:40Z","timestamp":1764688960292},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":1068,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,3,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: MetaboNetworks is a tool to create custom sub-networks in Matlab using main reaction pairs as defined by the Kyoto Encyclopaedia of Genes and Genomes and can be used to explore transgenomic interactions, for example mammalian and bacterial associations. It calculates the shortest path between a set of metabolites (e.g. biomarkers from a metabonomic study) and plots the connectivity between metabolites as links in a network graph. The resulting graph can be edited and explored interactively. Furthermore, nodes and edges in the graph are linked to the Kyoto Encyclopaedia of Genes and Genomes compound and reaction pair web pages.<\/jats:p>\n               <jats:p>Availability and implementation: MetaboNetworks is available from http:\/\/www.mathworks.com\/matlabcentral\/fileexchange\/42684.<\/jats:p>\n               <jats:p>Contact: \u00a0jmp111@ic.ac.uk or j.nicholson@imperial.ac.uk<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt612","type":"journal-article","created":{"date-parts":[[2013,11,1]],"date-time":"2013-11-01T06:53:15Z","timestamp":1383288795000},"page":"893-895","source":"Crossref","is-referenced-by-count":60,"title":["MetaboNetworks, an interactive Matlab-based toolbox for creating, customizing and exploring sub-networks from KEGG"],"prefix":"10.1093","volume":"30","author":[{"given":"Joram M.","family":"Posma","sequence":"first","affiliation":[{"name":"Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ London, UK"}]},{"given":"Steven L.","family":"Robinette","sequence":"additional","affiliation":[{"name":"Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ London, UK"}]},{"given":"Elaine","family":"Holmes","sequence":"additional","affiliation":[{"name":"Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ London, UK"}]},{"given":"Jeremy K.","family":"Nicholson","sequence":"additional","affiliation":[{"name":"Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, SW7 2AZ London, UK"}]}],"member":"286","published-online":{"date-parts":[[2013,10,30]]},"reference":[{"key":"2023012710450369400_btt612-B1","doi-asserted-by":"crossref","first-page":"518","DOI":"10.1093\/bioinformatics\/bts730","article-title":"KEGGParser: parsing and editing KEGG pathway maps in Matlab","volume":"29","author":"Arakelyan","year":"2013","journal-title":"Bioinformatics"},{"key":"2023012710450369400_btt612-B2","doi-asserted-by":"crossref","first-page":"1211","DOI":"10.1093\/bioinformatics\/btq105","article-title":"Pathway discovery in metabolic networks by subgraph extraction","volume":"26","author":"Faust","year":"2010","journal-title":"Bioinformatics"},{"key":"2023012710450369400_btt612-B3","doi-asserted-by":"crossref","first-page":"1355","DOI":"10.1126\/science.1124234","article-title":"Metagenomic analysis of the human distal gut microbiome","volume":"312","author":"Gill","year":"2006","journal-title":"Science"},{"key":"2023012710450369400_btt612-B4","volume-title":"MatlabBGL library","author":"Gleich","year":"2006"},{"key":"2023012710450369400_btt612-B5","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1093\/nar\/28.1.27","article-title":"KEGG: Kyoto Encyclopedia of Genes and Genomes","volume":"28","author":"Kanehisa","year":"2000","journal-title":"Nucleic Acids Res."},{"key":"2023012710450369400_btt612-B6","doi-asserted-by":"crossref","first-page":"D109","DOI":"10.1093\/nar\/gkr988","article-title":"KEGG for integration and interpretation of large-scale molecular data sets","volume":"40","author":"Kanehisa","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2023012710450369400_btt612-B7","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1093\/bioinformatics\/19.2.270","article-title":"Reconstruction of metabolic networks from genome data and analysis of their global structure for various organisms","volume":"19","author":"Ma","year":"2003","journal-title":"Bioinformatics"},{"key":"2023012710450369400_btt612-B8","doi-asserted-by":"crossref","first-page":"668","DOI":"10.1038\/nrd1157","article-title":"Opinion: understanding \u2018global\u2019 systems biology: metabonomics and the continuum of metabolism","volume":"2","author":"Nicholson","year":"2003","journal-title":"Nat. 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