Dataset Information

Gupta2009 - Eicosanoid Metabolism

ABSTRACT: Gupta2009 - Eicosanoid Metabolism Integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis. This model is described in the article: An integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis. Gupta S, Maurya MR, Stephens DL, Dennis EA, Subramaniam S. Biophys. J. 2009 Jun; 96(11):4542-51. Abstract: There is increasing evidence for a major and critical involvement of lipids in signal transduction and cellular trafficking, and this has motivated large-scale studies on lipid pathways. The Lipid Metabolites and Pathways Strategy consortium is actively investigating lipid metabolism in mammalian cells and has made available time-course data on various lipids in response to treatment with KDO(2)-lipid A (a lipopolysaccharide analog) of macrophage RAW 264.7 cells. The lipids known as eicosanoids play an important role in inflammation. We have reconstructed an integrated network of eicosanoid metabolism and signaling based on the KEGG pathway database and the literature and have developed a kinetic model. A matrix-based approach was used to estimate the rate constants from experimental data and these were further refined using generalized constrained nonlinear optimization. The resulting model fits the experimental data well for all species, and simulated enzyme activities were similar to their literature values. The quantitative model for eicosanoid metabolism that we have developed can be used to design experimental studies utilizing genetic and pharmacological perturbations to probe fluxes in lipid pathways. This model is hosted on BioModels Database and identified by: BIOMD0000000436 . To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models . To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

SUBMITTER: Byrnes Robert

PROVIDER: BIOMD0000000436 | BioModels | 2024-09-02

REPOSITORIES: BioModels

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An integrated model of eicosanoid metabolism and signaling based on lipidomics flux analysis.

Gupta Shakti S Maurya Mano Ram MR Stephens Daren L DL Dennis Edward A EA Subramaniam Shankar S

Biophysical journal 20090601 11

There is increasing evidence for a major and critical involvement of lipids in signal transduction and cellular trafficking, and this has motivated large-scale studies on lipid pathways. The Lipid Metabolites and Pathways Strategy consortium is actively investigating lipid metabolism in mammalian cells and has made available time-course data on various lipids in response to treatment with KDO(2)-lipid A (a lipopolysaccharide analog) of macrophage RAW 264.7 cells. The lipids known as eicosanoids ...[more]

PMID: 19486676

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