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Extra_Formats
Abel Hodelin Hernandez edited this page Jul 1, 2021
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For more information about the source visit Source of Bachmann model
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Supporting Information from Bachmann et al.([1])
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JWS Online
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BioModels (Bachmann2011_JAK2-STAT5_FeedbackControl)
- BIOMD0000000347_url.xml: SBML L2V4 representation of Bachmann2011_JAK2-STAT5_FeedbackControl
- BIOMD0000000347.xpp: Auto-generated XPP file
- BIOMD0000000347.pdf: Auto-generated PDF file
- BIOMD0000000347-biopax3.owl: Auto-generated BioPAX (Level 3)
- BIOMD0000000347.png: Auto-generated Reaction graph (PNG)
- BIOMD0000000347.sci: Auto-generated Scilab file
- BIOMD0000000347.m: Auto-generated Octave file
- BIOMD0000000347.vcml: Auto-generated VCML file
- BIOMD0000000347_urn.xml: Auto-generated SBML file with URNs
- BIOMD0000000347-biopax2.owl: Auto-generated BioPAX (Level 2)
- BIOMD0000000347.svg: Auto-generated Reaction graph (SVG)
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BioModels (Bachmann2011 - Division of labor by dual feedback regulators controls JAK2/STAT5 signaling over broad ligand range)
- Bachmann2011.xml: SBML L2V4 Representation of Bachmann2011. (Selected model to work!)
- Bachmann2011.cps: COPASI file of Bachmann2011
- Bachmann2011.sedml: SED-ML file of Bachmann2011
[1] Bachmann, J., Raue, A., Schilling, M. et al. Division of labor by dual feedback regulators controls JAK2/STAT5 signaling over broad ligand range. Molecular Systems Biology 7, 516 (2011). https://doi.org/10.1038/msb.2011.50
Bioinformatics & Systems biology SS 2021
- Synopsis Group 1
- Sources of Bachmann model
- Software tools for simulation
- How to build a Fully Featured COMBINE Archive?
- Communication channels
- Provision of a template for documentation
- Schedule (draft)
- Review of results
- COMBINE Archive (Testversion!)
- Synopsis Group 2
- Finding of SBML models
- Comparison of SBML models
- The chosen one
- Simulation tools
- Metadata
- Improving metadata annotations
- Synopsis Group 3
- SBGN Maps for Bachmann model
- Choice of SBGN language
- Tool to draw the SBGN Map
- SBGN-Map Drawing, Validation & Beautification
- Integration into COMBINE Archive
- Synopsis Group 4
- Selection of experiments
- Selection of SED-ML tool(s)
- Generation of SED-ML file(s)
- Integration into COMBINE Archive
- Test of SED-ML files and COMBINE Archive