Valentina Baldazzi

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The adaptation of the bacterium Escherichia coli to carbon starvation is controlled by a large network of biochemical reactions involving genes, mRNAs, proteins, and signalling molecules. The dynamics of these networks is difficult to analyze, notably due to a lack of quantitative information on parameter values. To overcome these limitations, model(More)
Gene regulatory networks consist of direct interactions but also include indirect interactions mediated by metabolites and signaling molecules. We describe how these indirect interactions can be derived from a model of the underlying biochemical reaction network, using weak time-scale assumptions in combination with sensitivity criteria from metabolic(More)
The efficiency of lymph nodes depends on tissue structure and organization, which allow the coordination of lymphocyte traffic. Despite their essential role, our understanding of lymph node specific mechanisms is still incomplete and currently a topic of intense research. In this paper, we present a hybrid discrete/continuous model of the lymph node,(More)
Gene regulatory networks consist of direct interactions, but also include indirect interactions mediated by metabolism. We investigate to which extent these indirect interactions arising from metabolic coupling influence the dynamics of the system. To this end, we build a qualitative model of the gene regulatory network controlling carbon assimilation in(More)
Knowledge of the genetic control of sugar metabolism is essential to enhance fruit quality and promote fruit consumption. The sugar content and composition of fruits varies with species, cultivar and stage of development, and is controlled by multiple enzymes. A QTL (quantitative trait locus) study was performed on peach fruit [Prunus persica (L.) Batsch],(More)
INTRODUCTION The recent development of high-density technologies has enabled a dramatic extension of the exploration of living organisms. Such exploration typically consists in the parallel measurement of large numbers of compounds, at different developmental stages or following the application of contrasted environmental stimuli. Correlation analysis or(More)
One of the ambitions of 'crop systems biology' is to combine information from molecular biology with a broader view of plant development and growth. In the context of modeling, this calls for a multiscale perspective that focuses on the interplay between cellular and macroscopic studies. With this in mind, in this review we aim to draw attention to a panel(More)
Fruit development, from its early stages, is the result of a complex network of interacting processes, on different scales. These include cell division, cell expansion but also nutrient transport from the plant, and exchanges with the environment. In the presence of nutrient limitation, in particular, the plant reacts as a whole, by modifying its(More)
Fruit taste is largely affected by the concentration of soluble sugars and organic acids and non-negligibly by fructose concentration, which is the sweetest-tasting sugar. To date, many studies investigating the sugars in fruit have focused on a specific sugar or enzyme and often on a single variety, but only a few detailed studies addressing sugar(More)
V. Baldazzi , S. Cocco , E. Marinari , R. Monasson 3 1 Dipartimento di Fisica, Università di Roma Tor Vergata, Roma, Italy 2 CNRS-Laboratoire de Physique Statistique de l’ENS, 24 rue Lhomond, 75005 Paris, France 3 CNRS-Laboratoire de Physique Théorique de l’ENS, 24 rue Lhomond, 75005 Paris, France 4 Dipartimento di Fisica and INFN, Università di Roma La(More)