DBsolve Optimum 2020 – Development & Analysis of Kinetic Models of Biochemical Pathways

DBsolve Optimum 2020

:: DESCRIPTION

DBSolve Optimum represents program tool for model creation, analysis, and estimation of the parameters with experimental data.

::DEVELOPER

Institute for Systems Biology SPb

:: SCREENSHOTS

:: REQUIREMENTS

Windows

:: DOWNLOAD

DBsolve Optimum

:: MORE INFORMATION

Citation:

Goryanin, O. Demin, F. Tobin, Applications of whole cell and large pathway mathematical models in the pharmaceutical industry. IN: Metabolic Engineering in the Post Genomic Era,(2004), p. 321-356
Moehren, G., Markevich, N., Demin, O, Kiyatkin, A., Goryanin, I., Hoek, J., Kholodenko, B.N. Temperature dependence of epidermal growth factor receptor signaling network can be accounted for using a kinetic model (2002) Biochemistry, 41(1), 306-320
Nail M Gizzatkulov, Igor I Goryanin, Eugeny A Metelkin, Ekaterina A Mogilevskaya, Kirill V Peskov and Oleg V Demin. DBSolve Optimum: a software package for kinetic modeling which allows dynamic visualization of simulation results. BMC Systems Biology (2010), 4:109.

KiMoSys – Quantitative KInetic MOdels of Biological SYStems

KiMoSys

:: DESCRIPTION

KiMoSys is a web application for quantitative KInetic MOdels of biological SYStems. Kinetic models, with the aim to understand and subsequently design the metabolism of organism of interest are constructed iteratively and require accurate experimental data for both the generation and verification of hypotheses. Therefore, there is a growing requirement for exchanging experimental data and models between the systems biology community, and to automate as much as possible the kinetic model building, editing, simulation and analysis steps.

::DEVELOPER

Systems Biomedicine

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Costa RS, Veríssimo A, Vinga S.
KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems.
BMC Syst Biol. 2014 Aug 13;8:85. doi: 10.1186/s12918-014-0085-3. PMID: 25115331; PMCID: PMC4236735.

Tav4SB 0.2.2 – Web service operations for analysis of the Kinetic models of Biological Systems

Tav4SB 0.2.2

:: DESCRIPTION

The Tav4SB (Taverna services for Systems Biology) project is a simple grid environment providing a set of Web service (WS) operations, together with bundling them workflows, prepared for the Taverna Workbench. Target application area is the System Biology field, in particular, analysis of kinetic models of biological systems.

::DEVELOPER

CompBio@MIMUW

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows/ MacOsX
Java
Taverna

:: DOWNLOAD

Tav4SB

:: MORE INFORMATION

Citation

BMC Syst Biol. 2012 Apr 5;6:25. doi: 10.1186/1752-0509-6-25.
Tav4SB: integrating tools for analysis of kinetic models of biological systems.
Rybiński M, Lula M, Banasik P, Lasota S, Gambin A.