Integration of transcriptomics and metabolomics data specifies the metabolic response of Chlamydomonas to rapamycin treatment

GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data

(2013) Brian J. Schmidt et al.   BIOINFORMATICS

The metabolic flux phenotype of heterotrophic Arabidopsis cells reveals a complex response to changes in nitrogen supply

(2013) Shyam K. Masakapalli et al.   PLANT JOURNAL

Glycolytic strategy as a tradeoff between energy yield and protein cost

(2013) A. Flamholz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Flux balance analysis of primary metabolism in Chlamydomonas reinhardtii

(2012) Nanette R Boyle et al.   BMC Systems Biology

Dynamic regulatory on/off minimization for biological systems under internal temporal perturbations

(2012) Sabrina Kleessen et al.   BMC Systems Biology

mTOR Signaling in Growth Control and Disease

(2012) Mathieu Laplante et al.   CELL

Model-based Confirmation of Alternative Substrates of Mitochondrial Electron Transport Chain

(2012) Sabrina Kleessen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mutations in the Arabidopsis Homolog of LST8/G L, a Partner of the Target of Rapamycin Kinase, Impair Plant Growth, Flowering, and Metabolic Adaptation to Long Days

(2012) M. Moreau et al.   PLANT CELL

Target of Rapamycin Signaling Regulates Metabolism, Growth, and Life Span in Arabidopsis

(2012) M. Ren et al.   PLANT CELL

Systemic analysis of inducible target of rapamycin mutants reveal a general metabolic switch controlling growth inArabidopsis thaliana

(2012) Camila Caldana et al.   PLANT JOURNAL

Shrinking the Metabolic Solution Space Using Experimental Datasets

(2012) Jennifer L. Reed   PLoS Computational Biology

Integration of expression data in genome-scale metabolic network reconstructions

(2012) Anna S. Blazier et al.   Frontiers in Physiology

Regulation of plant growth and metabolism by the TOR kinase

(2011) Thomas Dobrenel et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Construction and evaluation of a whole genome microarray of Chlamydomonas reinhardtii

(2011) Jörg Toepel et al.   BMC GENOMICS

Target of Rapamycin (TOR) in Nutrient Signaling and Growth Control

(2011) Robbie Loewith et al.   GENETICS

Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism

(2011) R. L. Chang et al.   Molecular Systems Biology

Elemental formula annotation of polar and lipophilic metabolites using13C,15N and34S isotope labelling, in combination with high-resolution mass spectrometry

(2011) Patrick Giavalisco et al.   PLANT JOURNAL

Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model

(2010) K. Yizhak et al.   BIOINFORMATICS

Mass Action Stoichiometric Simulation Models: Incorporating Kinetics and Regulation into Stoichiometric Models

(2010) Neema Jamshidi et al.   BIOPHYSICAL JOURNAL

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Flux balance analysis of biological systems: applications and challenges

(2009) K. Raman et al.   BRIEFINGS IN BIOINFORMATICS

Systems Biology: The elements and principles of Life

(2009) Hans V. Westerhoff et al.   FEBS LETTERS

Photosynthetic metabolism of C3 plants shows highly cooperative regulation under changing environments: A systems biological analysis

(2009) Ruoyu Luo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The application of flux balance analysis in systems biology

(2009) Erwin P. Gianchandani et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Interpreting Expression Data with Metabolic Flux Models: Predicting Mycobacterium tuberculosis Mycolic Acid Production

(2009) Caroline Colijn et al.   PLoS Computational Biology