Publications

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Lloret-Villas A, Daudin R, Le Novère N. "Big Data" in neuroscience: open door to a more comprehensive and translational research [Internet]. Big Data Analytics 2016;1:5.Available from: http://bdataanalytics.biomedcentral.com/articles/10.1186/s41044-016-0005-1
Lieven C, Beber MEmanuel, Olivier BG, Bergmann FT, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BElisabeth, Edirisinghe JN, Fleming RMT, Garcia-Jimenez B, van Helvoirt W, Henry C, Hermjakob H, Herrgård MJ, Kim HUk, King Z, Koehorst JJan, Klamt S, Klipp E, Lakshmanan M, Le Novère N, Lee D-Y, Lee SYup, Lee S, Lewis NE, Ma H, Machado D, Mahadevan R, Maia P, Mardinoglu A, Medlock GL, Monk J, Nielsen J, Nielsen LK, Nogales J, Nookaew I, Resendis O, Palsson B, Papin JA, Patil KRaosaheb, Price ND, Richelle A, Rocha I, Schaap P, Sheriff RSMalik, Shoaie S, Sonnenschein N, Teusink B, Vilaca P, Vik JOlav, Wodke JA, Xavier JC, Yuan Q, Zakhartsev M, Cheng Z. Memote: A community-driven effort towards a standardized genome-scale metabolic model test suite. BiorXiv 2018;
Li L, Stefan MI, Le Novère N. Calcium input frequency, duration and amplitude differentially modulate the relative activation of calcineurin and CaMKII. PLoS One 2012;7(9):e43810.
Li C, Courtot M, Le Novère N, Laibe C. BioModels.net Web Services, a free and integrated toolkit for computational modelling software. Brief Bioinform 2010;11(3):270-7.
Li L, Lai M, Cole S, Le Novère N, Edelstein SJ. Neurogranin Stimulates Ca2+/Calmodulin-dependent Kinase II by Suppressing Calcineurin Activity at Specific Calcium Spike Frequencies. PLoS Computational Biology In Press;
Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C. BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol 2010;4:92.
Li L, Lai M, Cole S, Le Novère N, Edelstein S. Neurogranin Stimulates Ca2+/calmodulin-dependent Kinase II by Inhibiting Calcineurin at Specific Calcium Spike Frequencies. BiorXiv 2019;2019/1/1
Le Novère N. Neurological disease: are systems approaches the way forward?. Pharmacopsychiatry 2008;41 Suppl 1:S28-31.
Le Novère N, Moodie S, Sorokin A, Hucka M, Schreiber F, Demir E, Mi H, Matsuoka Y, Wegner K, Kitano H. Systems biology graphical notation: process diagram level 1. 2008;
Le Novère N, Endler L. Using chemical kinetics to model biochemical pathways. Methods Mol Biol 2013;1021:147-67.
Le Novère N. Model storage, exchange and integration. BMC Neurosci 2006;7 Suppl 1:S11.
Le Novère N. Realistic Models of Neurons Require Quantitative Information at the Single-cell Level. In: Dauphinot, PotierUnravelling Single Cell Genomics. Bontoux; 2010 p. 45-53.
Le Novère N, Hucka M, Mi H, Moodie S, Schreiber F, Sorokin A, Demir E, Wegner K, Aladjem MI, Wimalaratne SM, Bergman FT, Gauges R, Ghazal P, Kawaji H, Li L, Matsuoka Y, Villeger A, Boyd SE, Calzone L, Courtot M, Dogrusoz U, Freeman TC, Funahashi A, Ghosh S, Jouraku A, Kim S, Kolpakov F, Luna A, Sahle S, Schmidt E, Watterson S, Wu G, Goryanin I, Kell DB, Sander C, Sauro H, Snoep JL, Kohn K, Kitano H. The Systems Biology Graphical Notation. Nat Biotechnol 2009;27(8):735-41.
Le Novère N, Courtot M, Laibe C. Adding semantics in kinetics models of biochemical pathways [Internet]. Proceedings of the 2nd International Symposium on experimental standard conditions of enzyme characterizations 2007;:137–153.Available from: http://www.beilstein-institut.de/index.php?id=196
Le Novère N, Tolle D. Particle-based stochastic simulations. In: Proceedings of the 4th Workshop on Computation of Biochemical Pathways and Genetic Networks. Logos; 2005 p. 41-45.
Le Novère N. The long journey to a Systems Biology of neuronal function. BMC Syst Biol 2007;1:28.
Le Novère N, Oellrich A. Systems Biology Markup Language (SBML) Level 3 Proposal: multistate components [Internet]. 2007;Available from: http://www.ebi.ac.uk/ lenov/PUBLIS/Lenov2007c.pdf
Le Novère N. Quantitative and logic modelling of gene and molecular networks. Nature Reviews Genetics 2015;16:146–158.
Le Novère N, Donizelli M. The Molecular Pages of the mesotelencephalic dopamine consortium (DopaNet). BMC Bioinformatics 2004;5:174.
Le Novère N, Moodie S, Sorokin A, Schreiber F, Mi H. Systems Biology Graphical Notation: Entity Relationship language Level 1. Nat Precedings 2009;
Le Novère N. BioModels. net, tools and resources to support Computational Systems Biology. In: 4th Workshop on Computation of Biochemical Pathways and Genetic Networks. 2005 p. 69–74.
Le Novère N, Finney A, Hucka M, Bhalla US, Campagne F, Collado-Vides J, Crampin EJ, Halstead M, Klipp E, Mendes P, Nielsen P, Sauro H, Shapiro B, Snoep JL, Spence HD, Wanner BL. Minimum information requested in the annotation of biochemical models (MIRIAM). Nat Biotechnol 2005;23(12):1509-15.
Le Novère N, Moodie S, Sorokin A, Schreiber F, Mi H. Systems Biology Graphical Notation: Entity Relationship language Level 1. Nat Precedings 2010;
Le Novère N, Li L, Girault J-A. DARPP-32: molecular integration of phosphorylation potential. Cell Mol Life Sci 2008;65(14):2125-7.
Le Novère N, Finney A. A simple scheme for annotating SBML with references to controlled vocabularies and database entries [Internet]. 2005;Available from: http://www.ebi.ac.uk/ lenov/PUBLIS/Lenov2005d.pdf
Le Novère N, Hucka M, Anwar N, Bader GD, Demir E, Moodie S, Sorokin A. Meeting report from the first meetings of the Computational Modeling in Biology Network (COMBINE). Stand Genomic Sci 2011;5(2):230-42.
Le Novère N, Bornstein B, Broicher A, Courtot M, Donizelli M, Dharuri H, Li L, Sauro H, Schilstra M, Shapiro B, Snoep JL, Hucka M. BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems. Nucleic Acids Res 2006;34(Database issue):D689-91.
Le Novère N, Demir E, Mi H, Moodie S, Villeger A. Systems Biology Graphical Notation: Entity Relationship language Level 1 (Version 1.2). Nat Precedings 2011;
Laibe C, Le Novère N. MIRIAM Resources: tools to generate and resolve robust cross-references in Systems Biology. BMC Syst Biol 2007;1:58.
Laibe C, Wimalaratne S, Juty N, Le Novère N, Hermjakob H. Identifiers.org: integration tool for heterogeneous datasets. 10th International workshop Data Integration in the Life Sciences 2014;
Lai M, Brun D, Edelstein S, Le Novère N. Modulation of calmodulin lobes by different targets: an allosteric model with hemiconcerted conformational transitions [Internet]. PLoS Computational Biology 2015;11(1):e1004063.Available from: http://arxiv.org/abs/1406.2195