The DOI matches its Crossref record; 10 of the 10 references it cites were found in a registry or an index.
Large-scale in silico modeling of metabolic interactions between cell types in the human brain
Open accessAbstract
Metabolic interactions between multiple cell types are difficult to model using existing approaches. Here we present a workflow that integrates gene expression data, proteomics data and literature-based manual curation to model human metabolism within and between different types of cells. Transport reactions are used to account for the transfer of metabolites between models of different cell types via the interstitial fluid. We apply the method to create models of brain energy metabolism that recapitulate metabolic interactions between astrocytes and various neuron types relevant to Alzheimer's disease. Analysis of the models identifies genes and pathways that may explain observed experimental phenomena, including the differential effects of the disease on cell types and regions of the brain. Constraint-based modeling can thus contribute to the study and analysis of multicellular metabolic processes in the human tissue microenvironment and provide detailed mechanistic insight into high-throughput data analysis.
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Cites
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Astrocyte-endothelial interactions at the blood-brain barrier
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What is flux balance analysis?
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Self-citationA protocol for generating a high-quality genome-scale metabolic reconstruction
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Self-citationFunctional brain abnormalities in young adults at genetic risk for late-onset Alzheimer's dementia
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The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli
Feist, A. M., & Palsson, B. Ø. (2008) · Nature Biotechnology · doi:10.1038/nbt1401 · Cited by 545 · cited 1×
“This approach has a wide range of applications, such as providing insight into evolution, aiding in metabolic engineering, and providing a mechanistic bridge between genotypes and complex phenotype”
BackgroundSelf-citationKim, K. K., Adelstein, R. S., & Kawamoto, S. (2009) · Journal of Biological Chemistry · doi:10.1074/jbc.m109.052969 · Cited by 398
A global view of protein expression in human cells, tissues, and organs
Pontén, F., Gry, M., Fagerberg, L., Lundberg, E., Asplund, A., Berglund, L., Oksvold, P., Björling, E., Hober, S., Kampf, C., et al. (2009) · Molecular Systems Biology · doi:10.1038/msb.2009.93 · Cited by 222
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The challenges of integrating multi-omic data sets
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Self-citationNetwork Context and Selection in the Evolution to Enzyme Specificity
Nam, H., Lewis, N. E., Lerman, J. A., Lee, D.-H., Chang, R. L., Kim, D., & Palsson, B. O. (2012) · Science · doi:10.1126/science.1216861 · Cited by 277
Self-citationMetabolic Network Analysis Reveals Altered Bile Acid Synthesis and Metabolism in Alzheimer’s Disease
Baloni, P., Funk, C. C., Yan, J., Yurkovich, J. T., Kueider-Paisley, A., Nho, K., Heinken, A., Jia, W., Mahmoudiandehkordi, S., Louie, G., et al. (2020) · Cell Reports Medicine · doi:10.1016/j.xcrm.2020.100138 · Cited by 211
Flux-Balance Modeling of Plant Metabolism
Sweetlove, L. J., & Ratcliffe, R. G. (2011) · Frontiers in Plant Science · doi:10.3389/fpls.2011.00038 · Cited by 137
Using the reconstructed genome-scale human metabolic network to study physiology and pathology
Bordbar, A., & Palsson, B. O. (2012) · Journal of Internal Medicine · doi:10.1111/j.1365-2796.2011.02494.x · Cited by 115
Self-citationThe evolution of genome-scale models of cancer metabolism
Lewis, N. E., & Abdel-Haleem, A. M. (2013) · Frontiers in Physiology · doi:10.3389/fphys.2013.00237 · Cited by 87
Self-citationGenome-scale models in human metabologenomics
Mardinoglu, A., & Palsson, B. Ø. (2025) · Nature Reviews Genetics · doi:10.1038/s41576-024-00768-0 · Cited by 54
Self-citationNogiec, C., Burkart, A., Dreyfuss, J. M., Lerin, C., Kasif, S., & Patti, M.-E. (2015) · Molecular Metabolism · doi:10.1016/j.molmet.2014.12.012 · Cited by 34
Resource allocation in mammalian systems
Baghdassarian, H. M., & Lewis, N. E. (2024) · Biotechnology Advances · doi:10.1016/j.biotechadv.2023.108305 · Cited by 17
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Metadata
- Authors
- Lewis, N. E., Schramm, G., Bordbar, A., Schellenberger, J., Andersen, M. P., Cheng, J. K., Patel, N., Yee, A., Lewis, R. A., Eils, R., König, R., & Palsson, B. Ø.
- Venue
- Nature Biotechnology
- Published
- 2010-11-21
- Volume
- 28
- Issue
- 12
- Pages
- 1279-1285
- ISSN
- 0733-222X (ISSN-L)
- 1087-0156
- 1546-1696
- OpenAlex
- W2128776645
- Cited by
- 262
- References
- 10
- FWCI
- 8.74
- Type
- journal article
- Language
- en
- Open access
- green
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