Gille2010_HepatoNet1_Metabolic_Network

This is the genome-scale metabolic network of a hepatocyte described in the article:
HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology.

Gille C, Bölling C, Hoppe A, Bulik S, Hoffmann S, Hübner K, Karlstädt A, Ganeshan R, König M, Rother K, Weidlich M, Behre J and Holzhütter HG. Mol Syst Biol.
2010 Sep 7;6:411.; PmID: 20823849
, DOI: 10.1038/msb.2010.62

Abstract:
We present HepatoNet1, the first reconstruction of a comprehensive metabolic network of the human hepatocyte that is shown to accomplish a large canon of known metabolic liver functions. The network comprises 777 metabolites in six intracellular and two extracellular compartments and 2539 reactions, including 1466 transport reactions. It is based on the manual evaluation of >1500 original scientific research publications to warrant a high-quality evidence-based model. The final network is the result of an iterative process of data compilation and rigorous computational testing of network functionality by means of constraint-based modeling techniques. Taking the hepatic detoxification of ammonia as an example, we show how the availability of nutrients and oxygen may modulate the interplay of various metabolic pathways to allow an efficient response of the liver to perturbations of the homeostasis of blood compounds.
This model was taken from the supplementary materials of the article. Only the notes and the compartment names were slightly altered.
This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team.
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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.

本数据集为一篇文献中描述的肝细胞基因组规模代谢网络（genome-scale metabolic network），相关文献如下：
《HepatoNet1：面向肝脏生理学分析的人类肝细胞全面代谢重构模型》

作者：Gille C、Bölling C、Hoppe A、Bulik S、Hoffmann S、Hübner K、Karlstädt A、Ganeshan R、König M、Rother K、Weidlich M、Behre J 与 Holzhütter HG
发表期刊：Mol Syst Biol.
发表信息：2010年9月7日；6:411；PMID：20823849；DOI：10.1038/msb.2010.62

摘要：
本研究提出HepatoNet1，这是首个人类肝细胞全面代谢网络重构模型，可实现已知的绝大多数肝脏代谢功能。该网络包含6个细胞内区室与2个细胞外区室中的777种代谢物，以及2539个反应（其中1466个为转运反应）。本模型基于对1500余篇原创科研文献的人工评估，以确保构建高质量的循证模型。最终的代谢网络是通过数据整合、以及基于约束建模技术对网络功能进行严格计算验证的迭代过程的产物。以肝脏氨解毒过程为例，本研究展示了营养物质与氧气的可获得性如何调控多种代谢通路的相互作用，使肝脏能够高效响应血液化合物稳态的扰动。

本模型取自该文章的补充材料，仅对注释与区室名称进行了小幅修改。
本模型源自BioModels数据库（全称：BioModels Database: A Database of Annotated Published Models，网址：http://www.ebi.ac.uk/biomodels/），版权归2005-2011年的BioModels.net团队所有。
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若需引用BioModels数据库，请使用以下著录格式：
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.