Endoplasmic reticulum and the unfolded protein response: dynamics and metabolic integration

R Bravo, V Parra, D Gatica, AE Rodriguez… - International review of …, 2013 - Elsevier
response to cellular stress, a well-established signaling cascade, the unfolded protein response
… Here, we review the distinct functions of the ER and UPR from a metabolic point of view, …

Signal integration in the endoplasmic reticulum unfolded protein response

D Ron, P Walter - Nature reviews Molecular cell biology, 2007 - nature.com
… — cumulatively called the unfolded protein response (UPR). Together, at least … metabolism
of proteins, amino acids and lipids. The arms of the UPR are integrated to provide a response

[HTML][HTML] An integrated stress response regulates amino acid metabolism and resistance to oxidative stress

HP Harding, Y Zhang, H Zeng, I Novoa, PD Lu… - Molecular cell, 2003 - cell.com
integrated stress response initiated by eIF2α phosphorylation that insures supply of amino
acids for protein … Activation of this integrated stress response is shown to have a special role …

Integrated genomic and proteomic analyses of a systematically perturbed metabolic network

T Ideker, V Thorsson, JA Ranish, R Christmas, J Buhler… - Science, 2001 - science.org
… the genes, gene products, and metabolic substrates required for function of this process and
protein responses, describe an ongoing attempt to systematically explain these responses

Metabolic fuel selection: general integration at the whole-body level

PJ Randle - Proceedings of the Nutrition Society, 1995 - cambridge.org
… Aspects of the partioning of tissue glucose metabolism are shown in Fig. 1; for reviews,
see … Glucose and free fatty acid metabolism in non-insulin-dependent diabetes mellitus - …

Optimal regulatory strategies for metabolic pathways in Escherichia coli depending on protein costs

F Wessely, M Bartl, R Guthke, P Li… - Molecular systems …, 2011 - embopress.org
… controls metabolism has not yet been fully explored. In this work, we address this problem
by integrating a large number of experimental data sets with a model of the metabolism of …

[HTML][HTML] Dynamic analysis of integrated signaling, metabolic, and regulatory networks

J Min Lee, EP Gianchandani, JA Eddy… - PLoS computational …, 2008 - journals.plos.org
… developed a prototypic integrated system comprising signaling, metabolic, and regulatory …
efficiently scaled to integrated intracellular systems that incorporate signaling, metabolic, and …

[HTML][HTML] Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data

W Liebermeister, E Klipp - Theoretical Biology and Medical Modelling, 2006 - Springer
… The structure of the metabolic system (ie, stoichiometries and … is obtained by integrating
metabolic fluxes, concentrations, … synthesis pathway: the integration of metabolic data has little …

[HTML][HTML] Distinct mitochondrial defects trigger the integrated stress response depending on the metabolic state of the cell

E Mick, DV Titov, OS Skinner, R Sharma, AA Jourdain… - elife, 2020 - elifesciences.org
Mitochondrial dysfunction is associated with activation of the integrated stress response (ISR)
but the underlying triggers remain unclear. We systematically combined acute …

Functional integration of a metabolic network model and expression data without arbitrary thresholding

PA Jensen, JA Papin - Bioinformatics, 2011 - academic.oup.com
… Our MADE algorithm integrates gene or protein expression data and a metabolic model
without a priori determination of activity thresholds. MADE can be applied to any set of two or …