Social engineering for virtual 'big science' in systems biology, Nature Chemical Biology, vol.26, issue.6, pp.323-326, 2011. ,
DOI : 10.1038/nchembio.574
Connecting the dots: role of standardization and technology sharing in biological simulation, Drug Discovery Today, vol.15, issue.23-24, pp.1024-1031, 2010. ,
DOI : 10.1016/j.drudis.2010.10.001
Computational systems biology of cancer, 2012. ,
Biomolecular Pathway Databases, Methods Mol Biol, vol.609, pp.129-144, 2010. ,
DOI : 10.1007/978-1-60327-241-4_8
Reactome: a knowledgebase of biological pathways, Nucleic Acids Research, vol.33, issue.Database issue, pp.428-432, 2005. ,
DOI : 10.1093/nar/gki072
The KEGG resource for deciphering the genome, Nucleic Acids Research, vol.32, issue.90001, pp.277-280, 2004. ,
DOI : 10.1093/nar/gkh063
PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification, Nucleic Acids Research, vol.31, issue.1, pp.334-341, 2003. ,
DOI : 10.1093/nar/gkg115
SPIKE ??? a database, visualization and analysis tool of cellular signaling pathways, BMC Bioinformatics, vol.9, issue.1, p.110, 2008. ,
DOI : 10.1186/1471-2105-9-110
WikiPathways: Pathway Editing for the People, PLoS Biology, vol.19, issue.7, p.184, 2008. ,
DOI : 10.1371/journal.pbio.0060184.g002
TRANSPATH(R): an information resource for storing and visualizing signaling pathways and their pathological aberrations, Nucleic Acids Research, vol.34, issue.90001, pp.546-551, 2006. ,
DOI : 10.1093/nar/gkj107
URL : https://hal.archives-ouvertes.fr/hal-00314881
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases, Nucleic Acids Research, vol.38, issue.Database, pp.473-479, 2010. ,
DOI : 10.1093/nar/gkp875
Critical assessment of human metabolic pathway databases: a stepping stone for future integration, BMC Systems Biology, vol.5, issue.1, p.165, 2011. ,
DOI : 10.1093/nar/gki711
A comprehensive modular map of molecular interactions in RB/E2F pathway, Molecular Systems Biology, vol.4, p.173, 2008. ,
DOI : 10.1016/S0092-8674(00)80625-X
A Lifetime of Metabolism, Cellular and Molecular Life Sciences, vol.63, issue.1, pp.1-5, 2006. ,
DOI : 10.1007/s00018-005-5500-x
Molecular Interaction Map of the Mammalian Cell Cycle Control and DNA Repair Systems, Molecular Biology of the Cell, vol.10, issue.8, pp.2703-2734, 1999. ,
DOI : 10.1091/mbc.10.8.2703
Using process diagrams for the graphical representation of biological networks, Nature Biotechnology, vol.33, issue.8, pp.961-966, 2005. ,
DOI : 10.1016/S1478-5382(03)02370-9
The Systems Biology Graphical Notation, Nature Biotechnology, vol.267, issue.8, pp.735-741, 2009. ,
DOI : 10.1038/nbt.1558
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models, Bioinformatics, vol.19, issue.4, pp.524-531, 2003. ,
DOI : 10.1093/bioinformatics/btg015
The BioPAX community standard for pathway data sharing, Nature Biotechnology, vol.35, issue.9, pp.935-942, 2010. ,
DOI : 10.1038/nbt.1666
Pathway databases and tools for their exploitation: benefits, current limitations and challenges, Molecular Systems Biology, vol.18, p.290, 2009. ,
DOI : 10.1093/bioinformatics/btm553
URL : http://doi.org/10.1038/msb.2009.47
CellPublisher: a web platform for the intuitive visualization and sharing of metabolic, signalling and regulatory pathways: Fig. 1., Bioinformatics, vol.26, issue.23, pp.2997-2999, 2010. ,
DOI : 10.1093/bioinformatics/btq585
Pathway Projector: Web-Based Zoomable Pathway Browser Using KEGG Atlas and Google Maps API, PLoS ONE, vol.36, issue.11, p.7710, 2009. ,
DOI : 10.1371/journal.pone.0007710.s001
URL : http://doi.org/10.1371/journal.pone.0007710
GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways, Nature Genetics, vol.31, issue.1, pp.19-20, 2002. ,
DOI : 10.1038/ng0502-19
Presenting and exploring biological pathways with PathVisio, BMC Bioinformatics, vol.9, issue.1, p.399, 2008. ,
DOI : 10.1186/1471-2105-9-399
Editing, validating and translating of SBGN maps, Bioinformatics, vol.26, issue.18, pp.2340-2341, 2010. ,
DOI : 10.1093/bioinformatics/btq407
Payao: a community platform for SBML pathway model curation, Bioinformatics, vol.26, issue.10, pp.1381-1383, 2010. ,
DOI : 10.1093/bioinformatics/btq143
PathBuilder--open source software for annotating and developing pathway resources, Bioinformatics, vol.25, issue.21, pp.2860-2862, 2009. ,
DOI : 10.1093/bioinformatics/btp453
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2781757
BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks, Bioinformatics, vol.24, issue.6, pp.876-877, 2008. ,
DOI : 10.1093/bioinformatics/btm553
URL : http://bioinformatics.oxfordjournals.org/cgi/content/short/24/6/876
BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways using standard systems biology formats, BMC Systems Biology, vol.7, issue.1, p.18, 2013. ,
DOI : 10.1038/ng1923
URL : https://hal.archives-ouvertes.fr/inserm-00820930
Practical Use of BiNoM: A Biological Network Manager Software, Methods Mol Biol Clifton NJ 2013, vol.1021, pp.127-146 ,
DOI : 10.1007/978-1-62703-450-0_7
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks, Genome Research, vol.13, issue.11, pp.2498-2504, 2003. ,
DOI : 10.1101/gr.1239303
A travel guide to Cytoscape plugins, Nature Methods, vol.8, issue.11, pp.1069-1076, 2012. ,
DOI : 10.1038/nbt.1567
Zomit: biological data visualization and browsing, Bioinformatics, vol.14, issue.9, pp.807-814, 1998. ,
DOI : 10.1093/bioinformatics/14.9.807
URL : http://bioinformatics.oxfordjournals.org/cgi/content/short/14/9/807
Web-Based Metabolic Network Visualization with a Zooming User Interface, BMC Bioinformatics, vol.12, issue.1, p.176, 2011. ,
DOI : 10.1186/1471-2105-12-176
Towards zoomable multidimensional maps of the cell, Nature Biotechnology, vol.30, issue.5, pp.547-554, 2007. ,
DOI : 10.1038/nbt1304
Identifiers.org and MIRIAM Registry: community resources to provide persistent identification, Nucleic Acids Research, vol.40, issue.D1, pp.580-586, 2012. ,
DOI : 10.1093/nar/gkr1097