SDREM 1.2 – Signaling and Dynamic Regulatory Events Miner

SDREM 1.2

:: DESCRIPTION

SDREM is a model which integrates static and time series data to link proteins and the pathways they regulate in these networks. SDREM uses prior information about proteins’ likelihood of involvement in a disease (e.g. from screens) to improve the quality of the predicted signaling pathways.

::DEVELOPER

 Systems Biology Group – Carnegie Mellon University

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / Windows
  • Java

:: DOWNLOAD

 SDREM

:: MORE INFORMATION

Citation

Bioinformatics. 2013 Jul 1;29(13):i227-36. doi: 10.1093/bioinformatics/btt241.
Identifying proteins controlling key disease signaling pathways.
Gitter A1, Bar-Joseph Z.

idFBA – Dynamic analysis of integrated Signaling, Metabolic, and Regulatory Networks

idFBA

:: DESCRIPTION

idFBA (integrated dynamic FBA) is a flux balance analysis (FBA)-based strategy  that dynamically simulates cellular phenotypes arising from integrated networks.

::DEVELOPER

the Computational Systems Biology Laboratory, Department of Biomedical Engineering, University of Virginia.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • MatLab

:: DOWNLOAD

idFBA

:: MORE INFORMATION

Citation:

Lee, J.M., E.P. Gianchandani, J.A. Eddy, and J.A. Papin. 2008.
Dynamic analysis of integrated signaling, metabolic, and regulatory networks.
PLoS Computational Biology, 4(5): e1000086