{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,28]],"date-time":"2025-09-28T15:32:02Z","timestamp":1759073522531},"reference-count":28,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2004,11,1]],"date-time":"2004-11-01T00:00:00Z","timestamp":1099267200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0\/"},{"start":{"date-parts":[[2004,11,1]],"date-time":"2004-11-01T00:00:00Z","timestamp":1099267200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0\/"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"abstract":"<jats:title>Abstract<\/jats:title><jats:sec>\n                        <jats:title>Background<\/jats:title>\n                        <jats:p>DopaNet <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.dopanet.org\">http:\/\/www.dopanet.org<\/jats:ext-link> is a Systems Biology initiative that aims to investigate precisely and quantitatively all the aspects of neurotransmission in a specific neuronal system, the mesotelencephalic dopamine system. The project should lead to large-scale models of molecular and cellular processes involved in neuronal signaling. A prerequisite is the proper storage of knowledge coming from the literature.<\/jats:p>\n                     <\/jats:sec><jats:sec>\n                        <jats:title>Methods<\/jats:title>\n                        <jats:p>DopaNet Molecular Pages are highly structured descriptions of quantitative parameters related to a specific molecular complex involved in neuronal signal processing. A Molecular Page is built by maintainers who are experts in the field, and responsible for the quality of the page content. Each piece of data is identified by a specific ontology code, annotated (method of acquisition, species, etc.) and linked to the relevant bibliography. The Molecular Pages are stored as XML files, and processed through the DopaNet Web Service, which provides functionalities to edit the Molecular Pages, to cross-link the Pages and generate the public display, and to search them.<\/jats:p>\n                     <\/jats:sec><jats:sec>\n                        <jats:title>Conclusions<\/jats:title>\n                        <jats:p>DopaNet Molecular Pages are one of the core resources of the DopaNet project but should be of widespread utility in the field of Systems Neurobiology.<\/jats:p>\n                     <\/jats:sec>","DOI":"10.1186\/1471-2105-5-174","type":"journal-article","created":{"date-parts":[[2004,11,6]],"date-time":"2004-11-06T07:24:44Z","timestamp":1099725884000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["The Molecular Pages of the mesotelencephalic dopamine consortium (DopaNet)"],"prefix":"10.1186","volume":"5","author":[{"given":"Nicolas","family":"Le Nov\u00e8re","sequence":"first","affiliation":[]},{"given":"Marco","family":"Donizelli","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2004,11,1]]},"reference":[{"key":"290_CR1","unstructured":"Genes to Cognition consortium[http:\/\/www.genes2cognition.org]"},{"key":"290_CR2","doi-asserted-by":"publisher","first-page":"577","DOI":"10.1016\/j.conb.2003.09.016","volume":"13","author":"SG Grant","year":"2003","unstructured":"Grant SG: Systems biology in neuroscience: bridging genes to cognition.\n                           Curr Opin Neurobiol 2003, 13: 577\u2013582. 10.1016\/j.conb.2003.09.016","journal-title":"Curr Opin Neurobiol"},{"key":"290_CR3","unstructured":"Alliance for Cellular Signalling[http:\/\/www.afcs.org]"},{"key":"290_CR4","doi-asserted-by":"publisher","first-page":"703","DOI":"10.1038\/nature01304","volume":"420","author":"AG Gilman","year":"2002","unstructured":"Gilman AG, Simon MI, Bourne HR, Harris BA, Long R, Ross EM, Stull JT, Taussig R, Bourne HR, Arkin AP, Cobb MH, Cyster JG, Devreotes PN, Ferrell JE, Fruman D, Gold M, Weiss A, Stull JT, Berridge MJ, Cantley LC, Catterall WA, Coughlin SR, Olson EN, Smith TF, Brugge JS, Botstein D, Dixon JE, Hunter T, Lefkowitz RJ, Pawson AJ, Sternberg PW, Varmus H, Subramaniam S, Sinkovits RS, Li J, Mock D, Ning Y, Saunders B, Sternweis PC, Hilgemann D, Scheuermann RH, DeCamp D, Hsueh R, Lin KM, Ni Y, Seaman WE, Simpson PC, O'Connell TD, Roach T, Simon MI, Choi S, Eversole-Cire P, Fraser I, Mumby MC, Zhao Y, Brekken D, Shu H, Meyer T, Chandy G, Heo WD, Liou J, O'Rourke N, Verghese M, Mumby SM, Han H, Brown HA, Forrester SJ, Ivanova P, Milne SB, Casey PJ, Harden TK, Arkin AP, Doyle J, Gray ML, Meyer T, Michnick S, Schmidt MA, Toner M, Tsien RY, Natarajan M, Ranganathan R, Sambrano GR: Overview of the Alliance for Cellular Signaling.\n                           Nature 2002, 420: 703\u2013706. 10.1038\/nature01304","journal-title":"Nature"},{"key":"290_CR5","unstructured":"mesotelencephalic dopamine consortium[http:\/\/www.dopanet.org]"},{"key":"290_CR6","doi-asserted-by":"publisher","first-page":"177","DOI":"10.1016\/0165-6147(92)90060-J","volume":"13","author":"GF Koob","year":"1992","unstructured":"Koob GF: Drugs of abuse: anatomy, pharmacology and function of reward pathways.\n                           Trends Pharmacol Sci 1992, 13: 177\u2013184. 10.1016\/0165-6147(92)90060-J","journal-title":"Trends Pharmacol Sci"},{"key":"290_CR7","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1016\/S0166-4328(02)00286-3","volume":"137","author":"G Di Chiara","year":"2002","unstructured":"Di Chiara G: Nucleus accumbens shell and core dopamine: differential role in behavior and addiction.\n                           Behav Brain Res 2002, 137: 75\u2013114. 10.1016\/S0166-4328(02)00286-3","journal-title":"Behav Brain Res"},{"key":"290_CR8","doi-asserted-by":"publisher","first-page":"1783","DOI":"10.1016\/S0140-6736(04)16305-8","volume":"363","author":"A Samii","year":"2004","unstructured":"Samii A, Nutt J, Ransom B: Parkinson's disease.\n                           Lancet 2004, 363: 1783\u20131793. 10.1016\/S0140-6736(04)16305-8","journal-title":"Lancet"},{"key":"290_CR9","unstructured":"Gene Ontology[http:\/\/www.geneontology.org]"},{"key":"290_CR10","doi-asserted-by":"publisher","first-page":"D258","DOI":"10.1093\/nar\/gkh036","volume":"32","author":"GO Consortium","year":"2004","unstructured":"Consortium GO: The Gene Ontology (GO) database and informatics resource.\n                           Nucleic Acids Res 2004, 32: D258-D261. 10.1093\/nar\/gkh036","journal-title":"Nucleic Acids Res"},{"key":"290_CR11","unstructured":"Open Biological Ontologies[http:\/\/obo.sourceforge.net\/]"},{"key":"290_CR12","unstructured":"Structural Classification of Proteins[http:\/\/scop.mrc-lmb.cam.ac.uk\/scop\/]"},{"key":"290_CR13","doi-asserted-by":"publisher","first-page":"536","DOI":"10.1006\/jmbi.1995.0159","volume":"247","author":"AG Murzin","year":"1995","unstructured":"Murzin AG, Brenner SE, Hubbard T, Chothia C: SCOP: a structural classification of proteins database for the investigation of sequences and structures.\n                           J Mol Biol 1995, 247: 536\u2013540. 10.1006\/jmbi.1995.0159","journal-title":"J Mol Biol"},{"key":"290_CR14","unstructured":"InterPro[http:\/\/www.ebi.ac.uk\/interpro\/]"},{"key":"290_CR15","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1093\/nar\/gkg046","volume":"31","author":"NJ Mulder","year":"2003","unstructured":"Mulder NJ, R A, Attwood TK, Bairoch A, Barrell D, Bateman A, Binns D, Biswas M, Bradley P, Bork P, Bucher P, Copley RR, Courcelle E, Das U, Durbin R, Falquet L, Fleischmann W, Griffiths-Jones S, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lopez R, Letunic I, Lonsdale D, Silventoinen V, Orchard SE, Pagni M, Peyruc D, Ponting CP, Selengut JD, Servant F, Sigrist CJA, Vaughan R, Zdobnov EM: Systems biology in neuroscience: bridging genes to cognition.\n                           Nucleic Acids Res 2003, 31: 315\u2013318. 10.1093\/nar\/gkg046","journal-title":"Nucleic Acids Res"},{"key":"290_CR16","unstructured":"Extensible Markup Language (XML) 1.0Third edition. [http:\/\/www.w3.org\/TR\/REC-xml\/]"},{"key":"290_CR17","unstructured":"XML Schema Part 0: Primer[http:\/\/www.w3.org\/TR\/xmlschema-0\/]"},{"key":"290_CR18","unstructured":"XSL Transformations (XSLT) Version 1.0[http:\/\/www.w3.org\/TR\/xslt]"},{"key":"290_CR19","unstructured":"Apache Xalan Java[http:\/\/xml.apache.org\/xalan-j\/index.html]"},{"key":"290_CR20","unstructured":"SOAP Version 1.2 Part 0: Primer[http:\/\/www.w3.org\/TR\/soap12-part0\/]"},{"key":"290_CR21","unstructured":"Apache Tomcat[http:\/\/jakarta.apache.org\/tomcat\/]"},{"key":"290_CR22","unstructured":"Apache Xerces Java[http:\/\/xml.apache.org\/xerces2-j\/index.html]"},{"key":"290_CR23","unstructured":"Apache Tomcat[http:\/\/xml.apache.org\/xindice\/]"},{"key":"290_CR24","unstructured":"Cell Type Ontology[http:\/\/obo.sourceforge.net\/cgi-bin\/detail.cgi?celltype]"},{"key":"290_CR25","unstructured":"Mammalian Phenotype Ontology[http:\/\/www.informatics.jax.org\/searches\/MP_form.shtml]"},{"key":"290_CR26","doi-asserted-by":"publisher","first-page":"524","DOI":"10.1093\/bioinformatics\/btg015","volume":"19","author":"M Hucka","year":"2003","unstructured":"Hucka M, Finney A, Sauro HM, Bolouri H, Doyle JC, Kitano H, Arkin AP, Bornstein BJ, Bray D, Cornish-Bowden A, Cuellar AA, Dronov S, Gilles ED, Ginkel M, Gor V, Goryanin II, Hedley WJ, Hodgman TC, Hofmeyr JH, Hunter PJ, Juty NS, Kasberger JL, Kremling A, Kummer U, Le Nov\u00e8re N, Loew LM, Lucio D, Mendes P, Minch E, Mjolsness ED, Nakayama Y, Nelson MR, Nielsen PF, Sakurada T, Schaff JC, Shapiro BE, Shimizu TS, Spence HD, Stelling J, Takahashi K, Tomita M, Wagner J, Wang J: The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.\n                           Bioinformatics 2003, 19: 524\u2013531. 10.1093\/bioinformatics\/btg015","journal-title":"Bioinformatics"},{"key":"290_CR27","unstructured":"Debian free operating system[http:\/\/www.debian.org\/]"},{"key":"290_CR28","unstructured":"MIT License[http:\/\/www.opensource.org\/licenses\/mit-license.php]"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-5-174.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1186\/1471-2105-5-174\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-5-174.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,7]],"date-time":"2024-10-07T12:20:36Z","timestamp":1728303636000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-5-174"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2004,11,1]]},"references-count":28,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2004,12]]}},"alternative-id":["290"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-5-174","relation":{},"ISSN":["1471-2105"],"issn-type":[{"type":"electronic","value":"1471-2105"}],"subject":[],"published":{"date-parts":[[2004,11,1]]},"assertion":[{"value":"6 July 2004","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"1 November 2004","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"1 November 2004","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"174"}}