Search Results - "Capuani, Fabrizio"

Modeling networks of coupled enzymatic reactions using the total quasi-steady state approximation by Ciliberto, Andrea, Capuani, Fabrizio, Tyson, John J

“…In metabolic networks, metabolites are usually present in great excess over the enzymes that catalyze their interconversion, and describing the rates of these…”
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The Caenorhabditis elegans Elongator complex regulates neuronal alpha-tubulin acetylation by Solinger, Jachen A, Paolinelli, Roberta, Klöss, Holger, Scorza, Francesco Berlanda, Marchesi, Stefano, Sauder, Ursula, Mitsushima, Dai, Capuani, Fabrizio, Stürzenbaum, Stephen R, Cassata, Giuseppe

“…Although acetylated alpha-tubulin is known to be a marker of stable microtubules in neurons, precise factors that regulate alpha-tubulin acetylation are, to…”
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Inferring metabolic phenotypes from the exometabolome through a thermodynamic variational principle by Martino, Daniele De, Capuani, Fabrizio, Martino, Andrea De

“…Networks of biochemical reactions, like cellular metabolic networks, are kept in non-equilibrium steady states by the exchange fluxes connecting them to the…”
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Unravelling druggable signalling networks that control F508del-CFTR proteostasis by Hegde, Ramanath Narayana, Parashuraman, Seetharaman, Iorio, Francesco, Ciciriello, Fabiana, Capuani, Fabrizio, Carissimo, Annamaria, Carrella, Diego, Belcastro, Vincenzo, Subramanian, Advait, Bounti, Laura, Persico, Maria, Carlile, Graeme, Galietta, Luis, Thomas, David Y, Di Bernardo, Diego, Luini, Alberto

“…Cystic fibrosis (CF) is caused by mutations in CF transmembrane conductance regulator (CFTR). The most frequent mutation (F508del-CFTR) results in altered…”
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Threshold-controlled ubiquitination of the EGFR directs receptor fate by Sigismund, Sara, Algisi, Veronica, Nappo, Gilda, Conte, Alexia, Pascolutti, Roberta, Cuomo, Alessandro, Bonaldi, Tiziana, Argenzio, Elisabetta, Verhoef, Lisette G G C, Maspero, Elena, Bianchi, Fabrizio, Capuani, Fabrizio, Ciliberto, Andrea, Polo, Simona, Di Fiore, Pier Paolo

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Counting and correcting thermodynamically infeasible flux cycles in genome-scale metabolic networks by De Martino, Daniele, Capuani, Fabrizio, Mori, Matteo, De Martino, Andrea, Marinari, Enzo

“…Thermodynamics constrains the flow of matter in a reaction network to occur through routes along which the Gibbs energy decreases, implying that viable…”
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Lattice-Boltzmann simulation of the sedimentation of charged disks by Capuani, Fabrizio, Pagonabarraga, Ignacio, Frenkel, Daan

“…We report a series of lattice-Boltzmann simulations of the sedimentation velocity of charged disks. In these simulations, we explicitly account for the…”
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Quantitative analysis reveals how EGFR activation and downregulation are coupled in normal but not in cancer cells by Capuani, Fabrizio, Conte, Alexia, Argenzio, Elisabetta, Marchetti, Luca, Priami, Corrado, Polo, Simona, Di Fiore, Pier Paolo, Sigismund, Sara, Ciliberto, Andrea

“…Ubiquitination of the epidermal growth factor receptor (EGFR) that occurs when Cbl and Grb2 bind to three phosphotyrosine residues (pY1045, pY1068 and pY1086)…”
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Threshold‐controlled ubiquitination of the EGFR directs receptor fate by Sigismund, Sara, Algisi, Veronica, Nappo, Gilda, Conte, Alexia, Pascolutti, Roberta, Cuomo, Alessandro, Bonaldi, Tiziana, Argenzio, Elisabetta, Verhoef, Lisette G G C, Maspero, Elena, Bianchi, Fabrizio, Capuani, Fabrizio, Ciliberto, Andrea, Polo, Simona, Di Fiore, Pier Paolo

“…How the cell converts graded signals into threshold‐activated responses is a question of great biological relevance. Here, we uncover a nonlinear modality of…”
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Quantitative constraint-based computational model of tumor-to-stroma coupling via lactate shuttle by Capuani, Fabrizio, De Martino, Daniele, Marinari, Enzo, De Martino, Andrea

“…Cancer cells utilize large amounts of ATP to sustain growth, relying primarily on non-oxidative, fermentative pathways for its production. In many types of…”
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Growth against entropy in bacterial metabolism: the phenotypic trade-off behind empirical growth rate distributions in E. coli by Martino, Daniele De, Capuani, Fabrizio, Martino, Andrea De

“…The solution space of genome-scale models of cellular metabolism provides a map between physically viable flux configurations and cellular metabolic phenotypes…”
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Vesicular and non-vesicular transport feed distinct glycosylation pathways in the Golgi by D’Angelo, Giovanni, Uemura, Takefumi, Chuang, Chia-Chen, Polishchuk, Elena, Santoro, Michele, Ohvo-Rekilä, Henna, Sato, Takashi, Di Tullio, Giuseppe, Varriale, Antonio, D’Auria, Sabato, Daniele, Tiziana, Capuani, Fabrizio, Johannes, Ludger, Mattjus, Peter, Monti, Maria, Pucci, Piero, Williams, Roger L., Burke, John E., Platt, Frances M., Harada, Akihiro, De Matteis, Maria Antonietta

“…Glucosylceramide (GlcCer), a common precursor of different glycosphingolipids, is shown to be channelled to two distinct pathways in the Golgi; non-vesicular…”
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RED-SEA Project: Towards a new-generation European interconnect by Gomez, Maria Engracia, Sahuquillo, Julio, Biagioni, Andrea, Chrysos, Nikos, Berton, Damien, Frezza, Ottorino, Lo Cicero, Francesca, Lonardo, Alessandro, Martinelli, Michele, Paolucci, Pier Stanislao, Pastorelli, Elena, Simula, Francesco, Turisini, Matteo, Vicini, Piero, Ammendola, Roberto, Chiarini, Carlotta, De Luca, Chiara, Capuani, Fabrizio, Castelló, Adrián, Duro, Jose, Stabile, Eugenio, Quintana, Enrique, Bernier-Bruna, Pascale, Chen, Claire, Lagadec, Pierre-Axel, Pichon, Gregoire, Walter, Etienne, Katevenis, Manolis, Bartzis, Sokratis, Mousouros, Orestis, Xirouchakis, Pantelis, Mageiropoulos, Vangelis, Gianioudis, Michalis, Loukas, Harisis, Ioannou, Aggelos, Kallimanis, Nikos, de la Rosa, Miguel Sanchez, Gomez-Lopez, Gabriel, Alfaro-Cortés, Francisco, Sahuquillo, Jesus Escudero, Garcia, Pedro Javier, Quiles, Francisco J., Sanchez, Jose L., De Gassowski, Gaetan, Hautreaux, Matthieu, Mathieu, Stephane, Moreau, Gilles, Perache, Marc, Taboada, Hugo, Hoefler, Torsten, Schneider, Timo, Barnaba, Matteo, Brandino, Giuseppe Piero, De Giorgi, Francesco, Poggi, Matteo, Mavroidis, Iakovos, Papaefstathiou, Yannis, Tampouratzis, Nikolaos, Kalisch, Benjamin, Krackhardt, Ulrich, Nuessle, Mondrian, Frings, Wolfang, Gottwald, Dominik, Guimaraes, Felime, Holicki, Max, Marx, Volker, Muller, Yannik, Clauss, Carsten, Falter, Hugo, Huang, Xu, Barillao, Jennifer Lopez, Moschny, Thomas, Pickartz, Simon

“…RED-SEA is a H2020 EuroHPC project, whose main objective is to prepare a new-generation European Interconnect, capable of powering the EU Exascale systems to…”
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Velocity fluctuations and dispersion in a simple porous medium by Capuani, Fabrizio, Frenkel, Daan, Lowe, Christopher P

“…We model a fluid-filled disordered porous medium by a lattice-Boltzmann system with randomly broken links. The broken links exert a friction on the fluid…”
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Low duplicability and network fragility of cancer genes by Rambaldi, Davide, Giorgi, Federico M, Capuani, Fabrizio, Ciliberto, Andrea, Ciccarelli, Francesca D

“…We identified genomic and network properties of ∼600 genes mutated in different cancer types. These genes tend not to duplicate but, unlike most human…”
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Mesoscopic lattice modeling of electrokinetic phenomena by Pagonabarraga, Ignacio, Capuani, Fabrizio, Frenkel, Daan

“…The development of models for electrolytes is challenging due to the long-range nature of electric interactions. We propose a novel implementation of a lattice…”
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Lattice-Boltzmann Simulations of Ionic Current Modulation by DNA Translocation by Reboux, Sylvain, Capuani, Fabrizio, Frenkel, Daan

“…We present a numerical study of the effect of DNA translocation on the ionic current through a nanopore. We use a coarse-grained model to solve the…”
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The Caenorhabditis elegans Elongator Complex Regulates Neuronal [alpha]-tubulin Acetylation: e1000820 by Solinger, Jachen A, Paolinelli, Roberta, Klöß, Holger, Scorza, Francesco Berlanda, Marchesi, Stefano, Sauder, Ursula, Mitsushima, Dai, Capuani, Fabrizio, Stürzenbaum, Stephen R, Cassata, Giuseppe

“…Although acetylated α-tubulin is known to be a marker of stable microtubules in neurons, precise factors that regulate α-tubulin acetylation are, to date,…”
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Remote teaching data-driven physical modeling through a COVID-19 open ended data challenge by Lagomarsino, Marco Cosentino, Pacifico, Guglielmo, Firmano, Valerio, Bella, Edoardo, Benzoni, Pietro, Grilli, Jacopo, Bassetti, Federico, Capuani, Fabrizio, Cicuta, Pietro, Gherardi, Marco

“…Physics can be seen as a conceptual approach to scientific problems, a method for discovery, but teaching this aspect of our discipline can be a challenge. We…”
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The Caenorhabditis elegans Elongator Complex Regulates Neuronal [alpha]-tubulin Acetylation by Solinger, Jachen, Paolinelli, Roberta, Klöß, Holger, Scorza, Francesco, Marchesi, Stefano, Sauder, Ursula, Mitsushima, Dai, Capuani, Fabrizio, Stürzenbaum, Stephen, Cassata, Giuseppe

“…  Although acetylated α-tubulin is known to be a marker of stable microtubules in neurons, precise factors that regulate α-tubulin acetylation are, to date,…”
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