E. coli
'E. coli Regulatory Networks'
- Regulation of a Central Metabolic Network
Network Properties:
16 regulatory proteins
43 out of 73 enzymes are regulated
Related Paper: Covert and Palsson,"Transcriptional Regulation in Constraints-Based Metabolic Models of Escherichia coli", JBC (2002)
Regulation of a Genome-Scale Metabolic Network (iMC1010)
Network Properties:
104 regulatory proteins
479 out of 906 metabolic genes are regulated
Related Paper: Covert, et. al.,"Integrating High-Throughput and Computational Data Elucidates Bacterial Networks", Nature (2004)
Network Files (excel):
Original Boolean Rules (v1) (see paper)
Updated Boolean Rules (v2) (see paper)
The Boolean Approach
Covert and Palsson, "Constraints-Based Models: Regulation of Gene Expression Reduces the Steady-state Solution Space", JTB (2003)
Covert, et. al., "Regulation of Gene Expression in Flux Balance Models of Metabolism", JTB (2001)