A5017814227- Gene Regulatory Network Analysis
- Microtubule and mitosis dynamics
- Fungal and yeast genetics research
- Bioinformatics and Genomic Networks
- Microbial Metabolic Engineering and Bioproduction
- Protein Structure and Dynamics
- Genomics and Chromatin Dynamics
- Light effects on plants
- Circadian rhythm and melatonin
- Evolution and Genetic Dynamics
- Endoplasmic Reticulum Stress and Disease
- Photosynthetic Processes and Mechanisms
- Plant Molecular Biology Research
- Genetics, Aging, and Longevity in Model Organisms
- Bacterial Genetics and Biotechnology
- DNA Repair Mechanisms
- Plant and Biological Electrophysiology Studies
- Evolutionary Game Theory and Cooperation
- Single-cell and spatial transcriptomics
- Plant Reproductive Biology
- Computational Drug Discovery Methods
- Mitochondrial Function and Pathology
- Origins and Evolution of Life
- Cell Image Analysis Techniques
- Heat shock proteins research
Pázmány Péter Catholic University
2016-2025
King's College London
2013-2022
University of Oxford
2020
University of New Brunswick
2019
Fondazione Edmund Mach
2013-2018
The Microsoft Research - University of Trento Centre for Computational and Systems Biology
2007-2013
University of Trento
2007-2013
Institute of Molecular Biology and Biophysics
2008-2011
Budapest University of Technology and Economics
2000-2008
Hungarian Academy of Sciences
2004-2007
The adaptive responses of a living cell to internal and external signals are controlled by networks proteins whose interactions so complex that the functional integration network cannot be comprehended intuitive reasoning alone. Mathematical modeling, based on biochemical rate equations, provides rigorous reliable tool for unraveling complexities molecular regulatory networks. budding yeast cycle is challenging test case this approach, because control system known in exquisite detail its...
The molecular machinery of cell cycle control is known in more detail for budding yeast, Saccharomyces cerevisiae, than any other eukaryotic organism. In recent years, many elegant experiments on yeast have dissected the roles cyclin molecules (Cln1–3 and Clb1–6) coordinating events DNA synthesis, bud emergence, spindle formation, nuclear division, separation. These experimental clues suggest a mechanism principal interactions controlling synthesis degradation. Using standard techniques...
Both computational and biological systems have to make decisions about switching from one state another. The 'Approximate Majority' algorithm provides the asymptotically fastest way reach a common decision by all members of population between two possible outcomes, where approximately matches initial relative majority. network that regulates mitotic entry cell-cycle in eukaryotes also makes before it induces early processes. Here we show switch inactive active forms mitosis promoting Cyclin...
Insulin-like peptides (ILPs) play highly conserved roles in development and physiology. Most animal genomes encode multiple ILPs. Here we identify mechanisms for how the forty Caenorhabditis elegans ILPs coordinate diverse processes, including development, reproduction, longevity several specific stress responses. Our systematic studies an ILP-based combinatorial code these phenotypes characterized by substantial functional specificity diversity rather than global redundancy. Notably, show...
COVID-19 is associated with diverse neurological abnormalities, but the underlying mechanisms are unclear. We hypothesized that microglia, resident immune cells of brain, centrally involved in this process. To study this, we developed an autopsy platform allowing integration molecular anatomy, protein and mRNA datasets postmortem mirror blocks brain peripheral organ samples from cases COVID-19. observed focal loss microglial P2Y12R, CX3CR1-CX3CL1 axis deficits metabolic failure at sites...
Significance Circadian rhythms provide temporal information to other cellular processes, such as metabolism. We investigate the coupling between cell cycle and circadian clock using mathematical modeling experimentally validate model-driven predictions with a model filamentous fungus, Neurospora crassa . demonstrate conserved mechanism in mammals, which results clock-gated mitotic cycles. Furthermore, we observe clock-dependent phase shifts of G1 G2 cyclins, may alter timing divisions. Our...
A detailed mathematical model for the fission yeast mitotic cycle is developed based on positive and negative feedback loops by which Cdc13/Cdc2 kinase activates inactivates itself. Positive feedbacks are created Cdc13/Cdc2-dependent phosphorylation of specific substrates: inactivating its regulators (Rum1, Ste9 Wee1/Mik1) activating regulator (Cdc25). slow loop turned during mitosis activation Slp1/anaphase-promoting complex (APC), indirectly re-activates regulators, leading to a drop in...
Cell polarity is regulated by evolutionarily conserved factors whose precise higher-order organization at the cell cortex largely unknown. Here we image frontally of live fission yeast cells using time-lapse and super-resolution microscopy. Interestingly, find that are organized in discrete cortical clusters resolvable to ~50–100 nm size, which can form become cortically enriched oligomerization. We show forced co-localization Tea1 Tea3 results defects, suggesting maintenance both distinct...
The complex dynamics of biological systems is primarily driven by molecular interactions that underpin the regulatory networks cells. These typically contain positive and negative feedback loops, which are responsible for switch-like oscillatory dynamics, respectively. Many computing rely on switches clocks as computational modules. While combination such modules in leads to a variety dynamical behaviours, it also driving development new algorithms. Here we present historical perspective...
Infectious diseases caused by drug-resistant fungi are an increasing threat to public health because of the high mortality rates and costs associated with treatment. Thus, understanding molecular mechanisms drug resistance is crucial interest for medical community. Here we investigated role regulated protein mistranslation, a characteristic mechanism used C. albicans diversify its proteome, in evolution fluconazole resistance. Such codon ambiguity usually considered highly deleterious, yet...
Pandemic management requires reliable and efficient dynamical simulation to predict control disease spreading. The COVID-19 (SARS-CoV-2) pandemic is mitigated by several non-pharmaceutical interventions, but it hard which of these are the most effective for a given population. We developed computationally scalable, agent-based microsimulation framework PanSim, allowing us test measures in multiple infection waves caused spread new virus variant city-sized societal environment using unified...
Numerous top-down kinetic models have been constructed to describe the cell cycle. These typically constructed, validated and analyzed using model species (molecular intermediates proteins) phenotypic observations, therefore do not focus on individual processes (reaction steps). We developed a method to: (a) quantify importance of each reaction steps in for positioning switch point [i.e. restriction (RP)]; (b) relate this control their effects molecular species, sensitivity co-control...
Loss of proteostasis and cellular senescence are key hallmarks aging, but direct cause-effect relationships not well understood. We show that most yeast cells arrest in G1 before death with low nuclear levels Cln3, a cyclin extremely sensitive to chaperone status. Chaperone availability is seriously compromised aged cells, the coincides massive aggregation metastable chaperone-activity reporter. Moreover, G1-cyclin overexpression increases lifespan chaperone-dependent manner. As prediction...
Cell cycle and circadian rhythms are conserved from cyanobacteria to humans with robust cyclic features. Recently, molecular links between these two processes have been discovered. Core clock transcription factors, Bmal1 Clock (Clk), directly regulate Wee1 kinase, which inhibits entry into the mitosis. We investigate effect of this connection on timing mammalian cell computational modeling tools. connect a minimal model rhythms, consists transcription—translation feedback loops, modified...
Report20 January 2009Open Access Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation Attila Csikász-Nagy Corresponding Author The Microsoft Research––University of Trento Centre for Computational Systems Biology, Povo (Trento), Italy Search more papers this author Orsolya Kapuy Department Biochemistry, Oxford Integrative University Oxford, UK Applied Biotechnology Food Science, Budapest Technology Economics, Budapest, Hungary Tóth Csaba Pál Biology Unit,...
Characterization of normal breast stem cells is important for understanding their role in development and cancer. However, the identity these a subject controversy localization epithelium not known. In this study, we utilized novel approach to analyze morphogenesis mammary lobules, by combining one-dimensional theoretical models computer-generated 3D fractals. Comparing predictions with immunohistochemical analysis tissue sections candidate cell markers, defined distinct areas where reside...