cy3sabiork

SABIO-RK webservice access
Categories: annotation, SABIO-RK, SBML
# cy3sabiork **cy3sabiork** is a [Cytoscape 3](http://www.cytoscape.org) app for accessing kinetic information from [SABIO-RK](http://sabio.villa-bosch.de/) via the RESTful web service. [![alt tag](https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-sabiork.png)](http://sabio.villa-bosch.de/) ![alt tag](https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/cy3sabiork-workflow.png) **Figure 1**: Workflow overview. **Support & Forum**: https://groups.google.com/forum/#!forum/cysbml-cyfluxviz **Bug Tracker**: https://github.com/matthiaskoenig/cy3sabiork/issues ## License * Source Code: [GPLv3](http://opensource.org/licenses/GPL-3.0) * Documentation: [CC BY-SA 4.0](http://creativecommons.org/licenses/by-sa/4.0/) ## How to cite **König M.** cy3sabiork: A Cytoscape app for visualizing kinetic data from SABIO-RK [version 1; referees: awaiting peer review]. F1000Research 2016, 5:1736 (doi: [10.12688/f1000research.9211.1](http://dx.doi.org/10.12688/f1000research.9211.1)) ## Screenshots ![alt tag](https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/cy3sabiork-gui.png) **Figure 2**: GUI overview. ![alt tag](https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/cy3sabiork-v0.3.0-screenshot.png) **Figure 3**: Reaction kinetic networks based on SABIO-RK RESTful queries. cy3sbml provides access to annotation information. ![alt tag](https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/cy3sabiork-galactose_metabolism.png) **Figure 4**: Reaction kinetic network for Human galactose metabolism. ## Acknowledgments cy3sabiork was developed by [Matthias König](https://www.livermetabolism.com/contact.html) within the Virtual Liver Network (VLN) and the Systems Medicine of the Liver (LiSyM). This work was supported by the Federal Ministry of Education and Research (BMBF, Germany) within the research network Systems Medicine of the Liver (LiSyM) [grant number 031L0054] and the Virtual Liver Network VLN [grant number 0315741]. <a href="http://network.virtual-liver.de/en/"><img src="https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-lisym.png" height="40"/></a>&nbsp;&nbsp; <a href="http://network.virtual-liver.de/en/"><img src="https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-vln.png" height="40"/></a>&nbsp;&nbsp; <a href="http://www.cytoscape.org/"><img src="https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-cytoscape.png" height="40""/></a>&nbsp;&nbsp; <a href="http://sbml.org/Main_Page"><img src="https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-sbml.png" height="40""/></a>&nbsp;&nbsp; <a href="http://www.bmbf.de/"><img src="https://raw.githubusercontent.com/matthiaskoenig/cy3sabiork/master/docs/images/logo-bmbf.png" height="80""/></a>&nbsp;&nbsp; We thank the SABIO-RK team for their support. We thank the SBML and Cytoscape community for their support and help. ## Change Log **v0.3.3** [2016-07-11] - bug fixes & cy3sbml update - release for zenodo DOI **v0.3.2** [2016-07-01] - fixes SBML reading bug on Windows **v0.3.1** [2016-06-28] - JavaFX based GUI - autocomplete fields with suggestions - WebView for Kinetic Information - Query results window - Full support of web services - SBML information parsed in results table - multiple bug fixes - updated JSBML dependencies **v0.3.0** [2016-06-07] - ported to Cytoscape 3 - updated documentation **v0.2.0** [2015-10-27] - migration to github - cy2sbml-v1.4.0 **v0.17** - logger updated **v0.16** - update library dependecies -> jersey-1.17.1 **v0.15** - first working version

0.3.3

Works with Cytoscape 3.4

Release Notes

- bug fixes & cy3sbml update - release for zenodo DOI

0.3.2

Works with Cytoscape 3.4

Release Notes

- fixes SBML reading bug on Windows

0.3.1

Works with Cytoscape 3.2

Release Notes

- JavaFX based GUI - autocomplete fields with suggestions - WebView for Kinetic Information - Query results window - Full support of web services - SBML information parsed in results table - multiple bug fixes - updated JSBML dependencies

0.3.0

Works with Cytoscape 3.2

Release Notes

- ported to Cytoscape 3 - updated documentation

CYTOSCAPE 3

Version 0.3.3

License Click here

Released 11 Jul 2016

Works with Cytoscape 3.4

Download Stats Click here