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List of works by Matteo Barberis

A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle

scientific article

A Mechanistic Computational Model Reveals That Plasticity of CD4 T Cell Differentiation Is a Function of Cytokine Composition and Dosage

article

A model for the spatiotemporal organization of DNA replication in Saccharomyces cerevisiae.

scientific article published on 22 March 2009

A multi-approach and multi-scale platform to model CD4+ T cells responding to infections

scientific article published on 03 August 2021

A variable fork rate affects timing of origin firing and S phase dynamics in Saccharomyces cerevisiae ⬇️

scientific article published on July 9, 2013

Advanced Modeling of Cellular Proliferation: Toward a Multi-scale Framework Coupling Cell Cycle to Metabolism by Integrating Logical and Constraint-Based Models

scientific article published on 01 January 2019

Advances and challenges in logical modeling of cell cycle regulation: perspective for multi-scale, integrative yeast cell models.

scientific article

CK2 regulates in vitro the activity of the yeast cyclin-dependent kinase inhibitor Sic1

scientific article published in 2005

Cell size at S phase initiation: an emergent property of the G1/S network

scientific article

ChIP-exo analysis highlights Fkh1 and Fkh2 transcription factors as hubs that integrate multi-scale networks in budding yeast

scientific article published on 01 September 2019

Clb3-centered regulations are recurrent across distinct parameter regions in minimal autonomous cell cycle oscillator designs

scientific article published on 03 April 2020

Conserved forkhead dimerization motif controls DNA replication timing and spatial organization of chromosomes in S. cerevisiae.

scientific article published on 06 March 2017

GEMMER: GEnome-wide tool for Multi-scale Modeling data Extraction and Representation for Saccharomyces cerevisiae

scientific article published on 01 June 2018

Integrative computational approach identifies drug targets in CD4<sup>+</sup> T-cell-mediated immune disorders

scientific article published on 22 January 2021

Kinetic modelling of DNA replication initiation in budding yeast.

scientific article published in January 2010

Learning to read and write in evolution: from static pseudoenzymes and pseudosignalers to dynamic gear shifters.

scientific article published on June 2017

Molecular Systems Biology of Sic1 in Yeast Cell Cycle Regulation Through Multiscale Modeling ⬇️

scientific article published on 01 January 2012

Predictable Irreversible Switching Between Acute and Chronic Inflammation

scientific article published on 07 August 2018

Quantitative Systems Biology to decipher design principles of a dynamic cell cycle network: the "Maximum Allowable mammalian Trade-Off-Weight" (MAmTOW).

scientific article published on 19 September 2017

ROS networks: designs, aging, Parkinson's disease and precision therapies

scientific article published on 26 October 2020

Replication origins and timing of temporal replication in budding yeast: how to solve the conundrum?

scientific article published on May 2010

Sic1 as a timer of Clb cyclin waves in the yeast cell cycle--design principle of not just an inhibitor.

scientific article published on 21 March 2012

Sic1 plays a role in timing and oscillatory behaviour of B-type cyclins

scientific article published on 18 September 2011

Simulation of Stimulation: Cytokine Dosage and Cell Cycle Crosstalk Driving Timing-Dependent T Cell Differentiation

scientific article published on 02 August 2018

Systems Pharmacology: An opinion on how to turn the impossible into grand challenges.

scientific article published on 25 July 2015

T cell phenotype switching in autoimmune disorders: Clinical significance of targeting metabolism

scientific article published in 2022

The Peculiar Glycolytic Pathway in Hyperthermophylic Archaea: Understanding Its Whims by Experimentation In Silico.

scientific article published on 20 April 2017

The yeast cyclin-dependent kinase inhibitor Sic1 and mammalian p27Kip1 are functional homologues with a structurally conserved inhibitory domain

scientific article

Towards a systems biology approach to mammalian cell cycle: modeling the entrance into S phase of quiescent fibroblasts after serum stimulation

scientific article

Unraveling interactions of cell cycle‐regulating proteins Sic1 and B‐type cyclins in living yeast cells: a FLIM‐FRET approach ⬇️

scientific article published on October 14, 2011

What influences DNA replication rate in budding yeast?

scientific article

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