News
UniProt links to SABIO-RK
03-11-2013
Starting with the release 2013_03 UniProtKB contains cross-references to SABIO-RK within "Enzyme and pathway databases". Currently, 2983 UniProt accession numbers link to kinetic data in SABIO-RK.
UniProt release 2013_03
Export kinetic data to Excel
02-21-2013
Export your selection of entries as Excel or as *.tsv files. Which columns of this data you would like to export is up to you!
SOAP web services closed
01-23-2013
We stopped supporting our SOAP web services. Please use the RESTful web services to access SABIO-RK data!
More details about how to use the RESTful web services are explained here.
Please feel free to contact us if you have any questions!
New Visual Search
11-27-2012
SABIO-RK now offers a new visualization of search results including the modification of the search.
Please feel free to test it and give us your feedback using the Feedback button!
The new visual search (beta test version) gives an overview about the distribution of search results within organisms and tissues. Additionally parameter types and kinetic laws are displayed.
Talk on SABIO-RK at VPH2012
09-14-2012
SABIO-RK will be presented in a talk at the VPH Conferences (VPH 2012) taking place in London (UK) on 18 – 20 September 2012.
VPH 2012 - INTEGRATIVE APPROACHES TO COMPUTATIONAL BIOMEDICINE (http://www.vph-noe.eu/vph2012) is organized by the Virtual Physiological Human Network of Excellence (VPH NoE). The Virtual Physiological Human Network of Excellence is an umbrella project representing the Virtual Physiological Human Initiative set up by the European Commission. VPH 2012 is an international conference on computational biomedicine, with a clear focus on the integrative aspects of the Virtual Physiological Human (VPH).
SABIO-RK tutorial at ICSB2012
07-31-2012
SABIO-RK will be presented at the International Conference on Systems Biology (ICSB) on August 19, 2012, 9:00 am - 2:30 pm as part of the tutorial Modelling and Simulation of Quantitative Biological Models
The tutorial will take place at the Donnelly Centre for Cellular and Biomolecular Research (CCBR) of the University of Toronto, Canada. The participation is free of charge.
Participants will learn setting-up quantitative computer models of biological networks using experimental kinetic data and simulating them in different systems biology platforms. Hands-on sessions, lectures and software demonstrations will be included providing attendees with the necessary skills to enable them to access experimental kinetics data from SABIO-RK, assembling computer models with these data and finally simulating the models within different tools like COPASI, CellDesigner, JWS online or Virtual Cell.
Target audience
Modellers and experimentalists with some basic experience in modelling and simulation of biological networks.
Agenda
1) Accessing biochemical reaction kinetics data via the SABIO-RK database
2) Setting up quantitative models in CellDesigner
3) Setting up quantitative models in Virtual Cell (VCell)
4) Setting up models online using SYCAMORE
5) Simulating models in COPASI, CellDesigner, JWS Online and VCell
6) Parameter estimation, optimization and model fitting
7) Model visualization and analysis
8) Integrated management of data, models and processes via the SEEK platform
