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Signaling Response Prediction (DREAM3, Challenge 2)
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Synopsis
Approximately 10,000 intracellular measurements (fluorescence signals proportional to the concentrations of phosphorylated proteins) and extracellular measurements (concentrations of cytokines released in response to cell stimulation) were acquired in human normal hepatocytes and the hepatocellular carcinoma cell line HepG2 cells. The datasets consist of measurements of 17 phospho-proteins (at 0 min, 30 min, and 3 hrs) and 20 cytokines (at 0 min, 3 hrs, and 24 hrs) in two cell types (normal and cancer) after perturbations to the pathway induced by the combinatorial treatment of 7 stimuli and 7 selective inhibitors.
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About the Data
Data generously provided by Peter Sorger, Harvard Medical School / MIT
References:
- Alexopoulos LG, Saez-Rodriguez J, Cosgrove B, Lauffenburger DA, Sorger P. Comparative pathway maps of normal and transformed human hepatocytes reveal widespread differences in inflammatory and NF-*B signaling. submitted
- Saez-Rodriguez J, Alexopoulos L, Epperlein J, Samaga R, Lauffenburger DA, Klamt, S and Sorger PK (2009) "Discrete logic modeling as a means to link protein signaling networks with functional analysis of mammalian signal transduction." Mol Syst Biol in press.
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Best Performer
- GenomeSingapore (Phospho-protein and Cytokine sub-challenges): Guillaume Bourque and Neil D. Clarke, Genome Institute of Singapore
- Vital_SIB (Phospho-protein sub-challenge): Nicolas Guex and Ioannis Xenarios, Swiss Institute of Bioinformatics
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