4.8 Article

Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity

Related references

Note: Only part of the references are listed.
Article Biophysics

Elimination of Thermodynamically Infeasible Loops in Steady-State Metabolic Models

Jan Schellenberger et al.

BIOPHYSICAL JOURNAL (2011)

Article Multidisciplinary Sciences

A Topological Map of the Compartmentalized Arabidopsis thaliana Leaf Metabolome

Stephan Krueger et al.

PLOS ONE (2011)

Review Biotechnology & Applied Microbiology

Systematizing the Generation of Missing Metabolic Knowledge

Jeffrey D. Orth et al.

BIOTECHNOLOGY AND BIOENGINEERING (2010)

Review Microbiology

The biomass objective function

Adam M. Feist et al.

CURRENT OPINION IN MICROBIOLOGY (2010)

Article Biochemistry & Molecular Biology

Mutation Analysis of Violaxanthin De-epoxidase Identifies Substrate-binding Sites and Residues Involved in Catalysis

Giorgia Saga et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2010)

Article Biochemistry & Molecular Biology

Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism

Livnat Jerby et al.

MOLECULAR SYSTEMS BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

High-throughput generation, optimization and analysis of genome-scale metabolic models

Christopher S. Henry et al.

NATURE BIOTECHNOLOGY (2010)

Article Biochemical Research Methods

A protocol for generating a high-quality genome-scale metabolic reconstruction

Ines Thiele et al.

NATURE PROTOCOLS (2010)

Article Plant Sciences

AraGEM, a Genome-Scale Reconstruction of the Primary Metabolic Network in Arabidopsis

Cristiana Gomes de Oliveira Dal'Molin et al.

PLANT PHYSIOLOGY (2010)

Article Biochemical Research Methods

Network-based prediction of metabolic enzymes' subcellular localization

Shira Mintz-Oron et al.

BIOINFORMATICS (2009)

Article Plant Sciences

A Genome-Scale Metabolic Model of Arabidopsis and Some of Its Properties

Mark G. Poolman et al.

PLANT PHYSIOLOGY (2009)

Article Biochemistry & Molecular Biology

Colors in the dark A model for the regulation of carotenoid biosynthesis in etioplasts

Antia Rodriguez-Villalon et al.

PLANT SIGNALING & BEHAVIOR (2009)

Review Plant Sciences

Metabolic flux analysis in plants: From intelligent design to rational engineering

Igor G. L. Libourel et al.

ANNUAL REVIEW OF PLANT BIOLOGY (2008)

Article Biophysics

Group contribution method for thermodynamic analysis of complex metabolic networks

Matthew D. Jankowski et al.

BIOPHYSICAL JOURNAL (2008)

Review Biotechnology & Applied Microbiology

The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli

Adam M. Feist et al.

NATURE BIOTECHNOLOGY (2008)

Article Multidisciplinary Sciences

Genome-scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics

Katja Baerenfaller et al.

SCIENCE (2008)

Review Plant Sciences

The plastidial MEP pathway: unified nomenclature and resources

Michael A. Phillips et al.

TRENDS IN PLANT SCIENCE (2008)

Article Multidisciplinary Sciences

Global reconstruction of the human metabolic network based on genomic and bibliomic data

Natalie C. Duarte et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Plant Sciences

The plant ER-Golgi interface: a highly structured and dynamic membrane complex

Patrick Moreau et al.

JOURNAL OF EXPERIMENTAL BOTANY (2007)

Article Plant Sciences

Compartmentation in plant metabolism

John E. Lunn

JOURNAL OF EXPERIMENTAL BOTANY (2007)

Article Biochemistry & Molecular Biology

SUBA: The Arabidopsis subcellular database

Joshua L. Heazlewood et al.

NUCLEIC ACIDS RESEARCH (2007)

Review Biochemistry & Molecular Biology

Lysine catabolism, an effective versatile regulator of lysine level in plants

A Stepansky et al.

AMINO ACIDS (2006)

Article Biotechnology & Applied Microbiology

Minimum information requested in the annotation of biochemical models (MIRIAM)

N Le Novère et al.

NATURE BIOTECHNOLOGY (2005)

Review Plant Sciences

Volatile science? Metabolic engineering of terpenoids in plants

A Aharoni et al.

TRENDS IN PLANT SCIENCE (2005)

Article Multidisciplinary Sciences

Regulatory on/off minimization of metabolic flux changes after genetic perturbations

T Shlomi et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Genetics & Heredity

A gene expression map of Arabidopsis thaliana development

M Schmid et al.

NATURE GENETICS (2005)

Article Biochemistry & Molecular Biology

Sites and regulation of auxin biosynthesis in Arabidopsis roots

K Ljung et al.

PLANT CELL (2005)

Review Plant Sciences

AraPerox. A database of putative Arabidopsis proteins from plant peroxisomes

S Reumann et al.

PLANT PHYSIOLOGY (2004)

Article Biotechnology & Applied Microbiology

OptKnock: A bilevel programming framework for identifying gene knockout strategies for microbial strain optimization

AP Burgard et al.

BIOTECHNOLOGY AND BIOENGINEERING (2003)

Article Biochemistry & Molecular Biology

The plant biotin synthase reaction - Identification and characterization of essential mitochondrial accessory protein components

A Picciocchi et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2003)

Article Plant Sciences

AraCyc: A biochemical pathway database for Arabidopsis

LA Mueller et al.

PLANT PHYSIOLOGY (2003)

Article Multidisciplinary Sciences

Analysis of optimality in natural and perturbed metabolic networks

D Segrè et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Article Biochemistry & Molecular Biology

KEGG: Kyoto Encyclopedia of Genes and Genomes

M Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2000)