Publications related to Cellular model

Community-based reconstruction and simulation of a full-scale model of region CA1 of rat hippocampus

Henry Markram, Eilif Benjamin Muller, Srikanth Ramaswamy, Michael Reimann, James Gonzalo King, Lida Kanari, Ying Shi, Armando Romani, Davide Bella, Felix Schürmann, Werner Alfons Hilda Van Geit, Marwan Muhammad Ahmed Abdellah, Pramod Shivaji Kumbhar, Alexis Arnaudon, Jean-Denis Georges Emile Courcol, András Ecker, Juan Bautista Hernando Vieites, Michael Emiel Gevaert, Huanxiang Lu, Cyrille Pierre Henri Favreau, Michele Migliore, Vishal Sood, Liesbeth Maria L Vanherpe, Cristina Colangelo, Mohameth François Sy, Judit Planas Carbonell, Joni Henrikki Herttuainen, Genrich Ivaska, Anna-Kristin Kaufmann, Szabolcs Kali, Elvis Boci, Thomas Brice Delemontex, Carmen Alina Lupascu, Nadir Roman Guerrero, Rosanna Migliore, Alberto Antonietti, Fabien Petitjean, Julian Martin Budd, Juan Luis Riquelme Roman, , , , ,

The effects of model complexity and size on metabolic flux distribution and control: case study in Escherichia coli

Vassily Hatzimanikatis, Georgios Fengos, Tuure Eelis Hameri

Background Significant efforts have been made in building large-scale kinetic models of cellular metabolism in the past two decades. However, most kinetic models published to date, remain focused around central carbon pathways or are built around ad hoc re ...

BMC2021

New and improved methods for integrated models of metabolism and gene expression

Pierre Guy Rémy Salvy

The beginning of the 21st century was marked by the advent of disruptive technologies, which ushered an era of groundbreaking advances in fundamental sciences, carried by the great pace at which computational capabilities spread and evolved. But the new ce ...

EPFL2021

Kinetic models of metabolism that consider alternative steady-state solutions of intracellular fluxes and concentrations

Vassily Hatzimanikatis, Ljubisa Miskovic, Meriç Ataman, Georgios Fengos, Tuure Eelis Hameri

Large-scale kinetic models are used for designing, predicting, and understanding the metabolic responses of living cells. Kinetic models are particularly attractive for the biosynthesis of target molecules in cells as they are typically better than other t ...

2019

Towards comprehensive and consistent kinetic models of metabolism under uncertainty

Tuure Eelis Hameri

Metabolism is the sum of the chemical interactions occurring inside a cell that process nutrients into cellular constituents and energy. Research in the recent decades has enabled the characterization of metabolic reaction networks for multiple organisms. ...

EPFL2019