navicell.curie.fr
NaviCell Features
https://navicell.curie.fr/pages/features.html
Data analysis, navigation, curation and maintenance of molecular interactions maps. How to cite us. ACSN Atlas of Cancer Signaling Networks. SBGN Systems Biology Graphical Notation. Map browsing by Google™ Map engine. Easy map navigation and its annotations using Google maps™ engine. The logic of navigation as scrolling and zooming; features as markers, pop-up bubbles and zoom bar are adapted from the Google map. Semantic zoom for viewing different levels of details on the map. Web design by NaviCell team.
navicell.curie.fr
FAQ
https://navicell.curie.fr/pages/faq.html
Data analysis, navigation, curation and maintenance of molecular interactions maps. How to cite us. ACSN Atlas of Cancer Signaling Networks. SBGN Systems Biology Graphical Notation. How can I use NaviCell for data visualization? How to find the gene or protein of my interest on the map in NaviCell? How to find map modules? Where to leave my suggestions? In any pop-up bubble on the map. See explanation in the User's Guide. How to upload my map? Maps can only be uploaded by the users if NaviCell applicatio...
discover.nci.nih.gov
MIM Home
https://discover.nci.nih.gov/mim/index.jsp
The updated formal specification for software implementation can be found in Luna et al., BMC Bioinformatics 2011, 12:167. For a quick reference sheet of the MIM symbols click here. Current diagram editors implementing these symbols are Pathvisio. Interactive electronic molecular interaction maps (eMIMs) allow the user to navigate through the molecular interaction network and link to molecular databases, references and annotations that contain pertinent information. Chromatin assembly during replication.
kimosys.org
KiMoSys: a web-based repository of experimental data for Kinetic Models of biological Systems
http://www.kimosys.org/links
Related External LINKS TO. Modeling tool for biochemical networks. Mathematical modeling of dynamical systems. Parameter estimation tool for SBML based models. Systems Biology toolbox for MATLAB. Standards and exchange formats. Systems Biology Markup Language. Minimum Information Requested in the Annotation of Models. Minimum Information About a Simulation Experiment. Systems Biology Graphical Notation. Simulation Experiment Description Markup Language. Kyoto Encyclopedia of Genes and Genomes.
navicell.curie.fr
Publications
https://navicell.curie.fr/pages/publications.html
Data analysis, navigation, curation and maintenance of molecular interactions maps. How to cite us. ACSN Atlas of Cancer Signaling Networks. SBGN Systems Biology Graphical Notation. Bonnet E, Viara E, Kuperstein I, Calzone L, Cohen D, Barillot E and Zinovyev A. NaviCell Web Service for network-based data visualization. Nucleic Acids Research (2015) doi: 10.1093/nar/gkv450. Kuperstein I, Cohen DPA, Pook S, Viara E, Calzone L, Barillot E and Zinovyev A. Calzone L, Gelay A, Zinovyev A, Radvanyi F, Barillot E.
reactome.org
Download Data | Reactome Pathway Database
http://www.reactome.org/pages/download-data
We have continuously supported the major open-data standards, including BioPAX. Export formats. The Reactome data and source code continues to be publicly accessible under the terms of a Creative Commons Attribution 3.0 Unported License. The Reactome website can be installed locally on Debian or Ubuntu Linux. This shell script. Will automate the Reactome local installation. More detailed instructions. GitHub Repository is accessible here. UniProt to pathways mapping file. ChEBI to pathways mapping file.
sbase.sbml.org
Basic Introduction to SBML - SBML.caltech.edu
http://sbase.sbml.org/Basic_Introduction_to_SBML
Parent pages: SBML.org. Basic Introduction to SBML. ATP Glc → ADP HexP. ATP Fru → ADP HexP. 2 HexP → Suc6P UDP. Suc6P → phos Suc. Fru HexP → Suc UDP. Suc → Fru Glc. HexP → glycolysis. Suc → Suc. Can you predict what a set of reactions like this will do when you start the system with different initial quantities? The starting point is an appreciation that computational modeling. Of biological systems is no longer a fringe activity—it's a requirement. Of biological processes are useful for visual presentat...
