Dataset Information

Bordbar2011_TissueSpecific-Hepatocyte_MetabolicNetwork

ABSTRACT: This model is from the article: A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. Bordbar A, Feist AM, Usaite-Black R, Woodcock J, Palsson BO, Famili I. BMC Syst Biol. 2011 Oct 31;5(1):180. 22041191 , Abstract: ABSTRACT: BACKGROUND: Genome-scale metabolic reconstructions provide a biologically meaningful mechanis tic basis for the genotype-phenotype relationship. The global human metabolic net work, termed Recon 1, has recently been reconstructed allowing the systems analys is of human metabolic physiology and pathology. Utilizing high-throughput data, R econ 1 has recently been tailored to different cells and tissues, including the l iver, kidney, brain, and alveolar macrophage. These models have shown utility in the study of systems medicine. However, no integrated analysis between human tiss ues has been done. RESULTS: To describe tissue-specific functions, Recon 1 was tailored to describe metabolis m in three human cells: adipocytes, hepatocytes, and myocytes. These cell-specifi c networks were manually curated and validated based on known cellular metabolic functions. To study intercellular interactions, a novel multi-tissue type modelin g approach was developed to integrate the metabolic functions for the three cell types, and subsequently used to simulate known integrated metabolic cycles. In ad dition, the multi-tissue model was used to study diabetes: a pathology with syste mic properties. High-throughput data was integrated with the network to determine differential metabolic activity between obese and type II obese gastric bypass p atients in a whole-body context. CONCLUSION: The multi-tissue type modeling approach presented provides a platform to study in tegrated metabolic states. As more cell and tissue-specific models are released, it is critical to develop a framework in which to study their interdependencies. 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. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

SUBMITTER: Vijayalakshmi Chelliah

PROVIDER: MODEL1111070001 | BioModels | 2005-01-01

REPOSITORIES: BioModels

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			Action	DRS
	MODEL1111070001?filename=MODEL1111070001-biopax2.owl	Owl
	MODEL1111070001?filename=MODEL1111070001-biopax3.owl	Owl
	MODEL1111070001?filename=MODEL1111070001.m	Other
	MODEL1111070001?filename=MODEL1111070001.pdf	Pdf
	MODEL1111070001?filename=MODEL1111070001.png	Other

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Publications

A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology.

Bordbar Aarash A Feist Adam M AM Usaite-Black Renata R Woodcock Joseph J Palsson Bernhard O BO Famili Iman I

BMC systems biology 20111031

<h4>Background</h4>Genome-scale metabolic reconstructions provide a biologically meaningful mechanistic basis for the genotype-phenotype relationship. The global human metabolic network, termed Recon 1, has recently been reconstructed allowing the systems analysis of human metabolic physiology and pathology. Utilizing high-throughput data, Recon 1 has recently been tailored to different cells and tissues, including the liver, kidney, brain, and alveolar macrophage. These models have shown utilit ...[more]

PMID: 22041191

Similar Datasets

Project description:This model is from the article: A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. Bordbar A, Feist AM, Usaite-Black R, Woodcock J, Palsson BO, Famili I. BMC Syst Biol. 2011 Oct 31;5(1):180. 22041191 , Abstract: ABSTRACT: BACKGROUND: Genome-scale metabolic reconstructions provide a biologically meaningful mechanistic basis for the genotype-phenotype relationship. The global human metabolic network, termed Recon 1, has recently been reconstructed allowing the systems analysis of human metabolic physiology and pathology. Utilizing high-throughput data, Recon 1 has recently been tailored to different cells and tissues, including the liver, kidney, brain, and alveolar macrophage. These models have shown utility in the study of systems medicine. However, no integrated analysis between human tissues has been done. RESULTS: To describe tissue-specific functions, Recon 1 was tailored to describe metabolism in three human cells: adipocytes, hepatocytes, and myocytes. These cell-specific networks were manually curated and validated based on known cellular metabolic functions. To study intercellular interactions, a novel multi-tissue type modeling approach was developed to integrate the metabolic functions for the three cell types, and subsequently used to simulate known integrated metabolic cycles. In addition, the multi-tissue model was used to study diabetes: a pathology with systemic properties. High-throughput data was integrated with the network to determine differential metabolic activity between obese and type II obese gastric bypass patients in a whole-body context. CONCLUSION: The multi-tissue type modeling approach presented provides a platform to study integrated metabolic states. As more cell and tissue-specific models are released, it is critical to develop a framework in which to study their interdependencies. 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. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

Project description:This model is from the article: A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. Bordbar A, Feist AM, Usaite-Black R, Woodcock J, Palsson BO, Famili I. BMC Syst Biol. 2011 Oct 31;5(1):180. 22041191 , Abstract: ABSTRACT: BACKGROUND: Genome-scale metabolic reconstructions provide a biologically meaningful mechanis tic basis for the genotype-phenotype relationship. The global human metabolic net work, termed Recon 1, has recently been reconstructed allowing the systems analys is of human metabolic physiology and pathology. Utilizing high-throughput data, R econ 1 has recently been tailored to different cells and tissues, including the l iver, kidney, brain, and alveolar macrophage. These models have shown utility in the study of systems medicine. However, no integrated analysis between human tiss ues has been done. RESULTS: To describe tissue-specific functions, Recon 1 was tailored to describe metabolis m in three human cells: adipocytes, hepatocytes, and myocytes. These cell-specifi c networks were manually curated and validated based on known cellular metabolic functions. To study intercellular interactions, a novel multi-tissue type modelin g approach was developed to integrate the metabolic functions for the three cell types, and subsequently used to simulate known integrated metabolic cycles. In ad dition, the multi-tissue model was used to study diabetes: a pathology with syste mic properties. High-throughput data was integrated with the network to determine differential metabolic activity between obese and type II obese gastric bypass p atients in a whole-body context. CONCLUSION: The multi-tissue type modeling approach presented provides a platform to study in tegrated metabolic states. As more cell and tissue-specific models are released, it is critical to develop a framework in which to study their interdependencies. 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. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.