Brain

Multi-cell models of human brain energy metabolism

This page contains the models published in Lewis et al., Nature Biotechnology (2010). As future updates and improvements are made, they will be posted here. These models contain the following 6 compartments: e-blood/endothelium, cA-astrocyte cytosol, mA-astrocyte mitochondrion, I-interstitium/synaptic cleft, cN-neuron cytosol, mN-neuron mitochondrion. Each network in the table below has been constrained using the parameters detailed in the manuscript supplementary tables. Two primary papers were used for the cerebral metabolic rates: 1, 2. Addition cerebral metabolic rates were used, and citations are detailed in the supplementary material.

Models (modelSetup.jpg)

Click the links below to download models in SBML or COBRA toolbox (Matlab *.mat files):

Brain Models v1.0 - iNL403      
Neuron Type Normal Normal Elderly Presenile AD
Glutamatergic SBML, COBRA SBML, COBRA SBML, COBRA
GABAergic SBML, COBRA SBML, COBRA SBML, COBRA
Cholinergic SBML, COBRA SBML, COBRA SBML, COBRA
Glu/GABA/Chol combined SBML, COBRA SBML, COBRA SBML, COBRA

Additional Notes

The units for all fluxes and bounds in the models should be umol/g wet brain/min. Supplementary tables with model parameters, citations, etc., can be downloaded here.

Full citation

Lewis NE, Schramm G, Bordbar A, Schellenberger J, Andersen MP, Cheng JK, Patel N, Yee A, Lewis RA, Eils R, König R, Palsson BO. Large-scale in silico modeling of metabolic interactions between cell types in the human brain, Nature Biotechnology, advance online publication, Nov 21, 2010.

Contact: Nathan Lewis - n1lewis@ucsd.edu

Location

Location

417 Powell-Focht Bioengineering Hall

9500 Gilman Drive La Jolla, CA 92093-0412

Contact Us

Contact Us

In Silico Lab:  858-822-1144

Wet Lab:  858-246-1625

FAX:   858-822-3120

Website Concerns: sbrgit@ucsd.edu

User Login