|Cell Size at S Phase Initiation: An Emergent Property of the G1/S Network|
M Barberis, E Klipp, M Vanoni, L Alberghina
PLoS computational biology 3 (4), e64, 2007
|The yeast cyclin-dependent kinase inhibitor Sic1 and mammalian p27Kip1 are functional homologues with a structurally conserved inhibitory domain|
M Barberis, L De Gioia, M Ruzzene, S Sarno, P Coccetti, P Fantucci, ...
Biochemical Journal 387 (3), 639-647, 2005
|Towards a systems biology approach to mammalian cell cycle: modeling the entrance into S phase of quiescent fibroblasts after serum stimulation|
R Alfieri, M Barberis, F Chiaradonna, D Gaglio, L Milanesi, M Vanoni, ...
BMC bioinformatics 10 (12), 1-15, 2009
|Sic1 plays a role in timing and oscillatory behaviour of B-type cyclins|
M Barberis, C Linke, MŔ Adrover, A González-Novo, H Lehrach, ...
Biotechnology advances 30 (1), 108-130, 2012
|Conserved forkhead dimerization motif controls DNA replication timing and spatial organization of chromosomes in S. cerevisiae|
AZ Ostrow, R Kalhor, Y Gan, SK Villwock, C Linke, M Barberis, L Chen, ...
Proceedings of the National Academy of Sciences 114 (12), E2411-E2419, 2017
|Sic1 as a timer of Clb cyclin waves in the yeast cell cycle–design principle of not just an inhibitor|
The FEBS Journal 279 (18), 3386-3410, 2012
|Fkh1 and Fkh2 associate with Sir2 to control CLB2 transcription under normal and oxidative stress conditions|
C Linke, E Klipp, H Lehrach, M Barberis, S Krobitsch
Frontiers in physiology 4, 173, 2013
|A model for the spatiotemporal organization of DNA replication in Saccharomyces cerevisiae|
TW Spiesser, E Klipp, M Barberis
Molecular Genetics and Genomics 282 (1), 25-35, 2009
|A mechanistic computational model reveals that plasticity of CD4+ T cell differentiation is a function of cytokine composition and dosage|
BL Puniya, RG Todd, A Mohammed, DM Brown, M Barberis, T Helikar
Frontiers in physiology, 878, 2018
|A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle|
C Linke, A Chasapi, A González-Novo, I Al Sawad, S Tognetti, E Klipp, ...
NPJ systems biology and applications 3 (1), 1-12, 2017
|CK2 regulates in vitro the activity of the yeast cyclin-dependent kinase inhibitor Sic1|
M Barberis, MA Pagano, L De Gioia, O Marin, M Vanoni, LA Pinna, ...
Biochemical and biophysical research communications 336 (4), 1040-1048, 2005
|Simulation of stimulation: cytokine dosage and cell cycle crosstalk driving timing-dependent T cell differentiation|
M Barberis, T Helikar, P Verbruggen
Frontiers in Physiology 9, 879, 2018
|Replication origins and timing of temporal replication in budding yeast: how to solve the conundrum?|
M Barberis, T W Spiesser, E Klipp
Current genomics 11 (3), 199-211, 2010
|Systems pharmacology: an opinion on how to turn the impossible into grand challenges|
HV Westerhoff, S Nakayama, TDGA Mondeel, M Barberis
Drug Discovery Today: Technologies 15, 23-31, 2015
|INSIGHTS INTO THE NETWORK CONTROLLING THE G1/S TRANSITION IN BUDDING YEAST|
M Barberis, E Klipp
Genome Informatics 2007: Genome Informatics Series Vol. 18, 85-99, 2007
|ROS networks: designs, aging, Parkinson’s disease and precision therapies|
A N Kolodkin, RP Sharma, AM Colangelo, A Ignatenko, F Martorana, ...
NPJ systems biology and applications 6 (1), 1-20, 2020
|Advances and challenges in logical modeling of cell cycle regulation: perspective for multi-scale, integrative yeast cell models|
M Barberis, RG Todd, L van der Zee
Yeast Research 17 (1), fow103, 2017
|Unraveling interactions of cell cycle‐regulating proteins Sic1 and B‐type cyclins in living yeast cells: a FLIM‐FRET approach|
G Schreiber, M Barberis, S Scolari, C Klaus, A Herrmann, E Klipp
The FASEB Journal 26 (2), 546-554, 2012
|Predictable irreversible switching between acute and chronic inflammation|
A Abudukelimu, M Barberis, FA Redegeld, N Sahin, HV Westerhoff
Frontiers in immunology 9, 1596, 2018
|Computer-aided whole-cell design: taking a holistic approach by integrating synthetic with systems biology|
L Marucci, M Barberis, J Karr, O Ray, PR Race, M de Souza Andrade, ...
Frontiers in Bioengineering and Biotechnology 8, 942, 2020