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List of works by John J Tyson

A Model of Yeast Cell-Cycle Regulation Based on a Standard Component Modeling Strategy for Protein Regulatory Networks

scientific article

A Stochastic Model of the Yeast Cell Cycle Reveals Roles for Feedback Regulation in Limiting Cellular Variability

scientific article

A cellular automation model of excitable media including curvature and dispersion

scientific article

A hybrid model of mammalian cell cycle regulation

scientific article

A hybrid stochastic model of the budding yeast cell cycle

scientific article published on 27 March 2020

A kinetic hairpin transfer model for parvoviral DNA replication

scientific article published in July 1989

A kinetic model of the cyclin E/Cdk2 developmental timer in Xenopus laevis embryos

scientific article

A mathematical model for the reciprocal differentiation of T helper 17 cells and induced regulatory T cells

scientific article

A mathematical model of mitotic exit in budding yeast: the role of Polo kinase

scientific article

A model for restriction point control of the mammalian cell cycle.

scientific article published in October 2004

A model of yeast cell-cycle regulation based on multisite phosphorylation

scientific article

A precarious balance.

scientific article

A proposal for robust temperature compensation of circadian rhythms

scholarly article

A proposal for temperature compensation of the circadian rhythm in Drosophila based on dimerization of the per protein

scientific article published on September 1997

A quantitative model of the effect of unreplicated DNA on cell cycle progression in frog egg extracts

scientific article published on 31 May 2009

A quantitative study of the division cycle of Caulobacter crescentus stalked cells

scientific article

A simple model of circadian rhythms based on dimerization and proteolysis of PER and TIM.

scientific article

A simple theoretical framework for understanding heterogeneous differentiation of CD4+ T cells.

scientific article

A stochastic model correctly predicts changes in budding yeast cell cycle dynamics upon periodic expression of CLN2

scientific article

A stochastic, molecular model of the fission yeast cell cycle: role of the nucleocytoplasmic ratio in cycle time regulation.

scientific article published in August 2001

An improved data analysis method for interleukin 2 microassay

scientific article

Analysis of Physarum proteins throughout the cell cycle by two-dimensional PAGE.

scientific article

Analysis of a generic model of eukaryotic cell-cycle regulation

scientific article

Another turn for p53.

scientific article published on 13 June 2006

Antagonism and bistability in protein interaction networks.

scientific article

Arthur T. Winfree (1942-2002).

scientific article published in October 2004

Bifurcation analysis of a model of mitotic control in frog eggs

scientific article published in November 1998

Bifurcation analysis of a model of the budding yeast cell cycle

scientific article

Bistability by multiple phosphorylation of regulatory proteins

scientific article published on 11 June 2009

Bringing cartoons to life

scientific article

Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation

scientific article (publication date: 20 January 2009)

Cell cycle: who turns the crank?

scientific article published in March 2011

Cell growth and division: a deterministic/probabilistic model of the cell cycle

scientific article published on 01 January 1986

Challenges for Modeling and Simulation Methods in Systems Biology

Computational analysis of dynamical responses to the intrinsic pathway of programmed cell death

scientific article published on July 2009

Computer evaluation of network dynamics models with application to cell cycle control in budding yeast

scientific article

Control of cell growth, division and death: information processing in living cells

scientific article

Derepression as a model for control of the DNA-division cycle in eukaryotes

scientific article published on 01 August 1979

Design principles of biochemical oscillators

scientific article published on 30 October 2008

Dilution and titration of cell-cycle regulators may control cell size in budding yeast

article

Dynamical modeling of syncytial mitotic cycles in Drosophila embryos

scientific article

Effects of asymmetric division on a stochastic model of the cell division cycle

scientific article published in October 1989

Endoplasmic reticulum stress, the unfolded protein response, autophagy, and the integrated regulation of breast cancer cell fate.

scientific article published in March 2012

Exploring mechanisms of the DNA-damage response: p53 pulses and their possible relevance to apoptosis.

scientific article

Exploring the roles of noise in the eukaryotic cell cycle.

scholarly article

From START to FINISH: computational analysis of cell cycle control in budding yeast.

scientific article

Functional motifs in biochemical reaction networks.

scientific article published on January 2010

Genetic interactions derived from high-throughput phenotyping of 6589 yeast cell cycle mutants

scientific article published on 06 May 2020

Globally optimised parameters for a model of mitotic control in frog egg extracts.

scientific article

Hybrid modeling and simulation of stochastic effects on progression through the eukaryotic cell cycle

scientific article published on January 2012

Hysteresis drives cell-cycle transitions in Xenopus laevis egg extracts

scientific article

Identification and changes in activity of five thymidine kinase forms during the cell cycle of Physarum polycephalum

scientific article published on 01 March 1983

Induction of polyploid nuclei in Physarum polycephalum by cycloheximide treatment in prophase

scientific article published on 01 August 1984

Irreversible cell-cycle transitions are due to systems-level feedback

scientific article

Is nuclear division in Physarum controlled by a continuous limit cycle oscillator?

scientific article published on August 21, 1978

Law of mass action

scientific article published on May 14, 1992

Mathematical analysis of robustness of oscillations in models of the mammalian circadian clock

scientific article published on 18 March 2022

Mathematical model for early development of the sea urchin embryo

scientific article published in January 2000

Mathematical model of the cell division cycle of fission yeast.

scientific article

Mathematical model of the fission yeast cell cycle with checkpoint controls at the G1/S, G2/M and metaphase/anaphase transitions ⬇️

scientific article published on May 5, 1998

Mathematical model of the morphogenesis checkpoint in budding yeast.

scientific article

Mathematical modeling as a tool for investigating cell cycle control networks

scientific article

Mathematical models of the transitions between endocrine therapy responsive and resistant states in breast cancer.

scientific article

Measurement and modeling of transcriptional noise in the cell cycle regulatory network.

scientific article published on 04 September 2013

Minimal models for cell-cycle control based on competitive inhibition and multisite phosphorylations of Cdk substrates.

scientific article published on 19 March 2013

Misuse of the Michaelis-Menten rate law for protein interaction networks and its remedy

scientific article published on 22 October 2020

Model aggregation: a building-block approach to creating large macromolecular regulatory networks

scientific article

Model composition for macromolecular regulatory networks

scientific article published on April 2010

Modeling molecular regulatory networks with JigCell and PET.

scientific article published on January 2009

Modeling networks of coupled enzymatic reactions using the total quasi-steady state approximation

scientific article

Modeling regulatory networks at Virginia Tech

scientific article

Modeling the cell division cycle: cdc2 and cyclin interactions ⬇️

scientific article published on August 15, 1991

Modeling the control of DNA replication in fission yeast

scientific article published on August 1997

Modeling the dynamic behavior of biochemical regulatory networks

scientific article published on 28 November 2018

Modeling the estrogen receptor to growth factor receptor signaling switch in human breast cancer cells

scientific article

Modeling the fission yeast cell cycle: quantized cycle times in wee1- cdc25Delta mutant cells

scientific article published in July 2000

Modeling the interactions of sense and antisense Period transcripts in the mammalian circadian clock network.

scientific article published on 15 February 2018

Modeling the septation initiation network (SIN) in fission yeast cells

scientific article

Modelling the effect of GRP78 on anti-oestrogen sensitivity and resistance in breast cancer

scientific article published on August 2013

Modelling the fission yeast cell cycle

scientific article published on February 2004

Models of cell cycle control in eukaryotes

scientific article published in May 1999

Molecular mechanisms creating bistable switches at cell cycle transitions.

scientific article published on 13 March 2013

Monitoring p53's pulse

scientific article published on 01 February 2004

Multistate Model Builder (MSMB): a flexible editor for compact biochemical models

scientific article

Network dynamics and cell physiology

scientific article

Nonspiral excitation waves beyond the eikonal approximation

scientific article published on 01 October 1996

Nucleation of stem cell domains in a bistable activator–inhibitor model of the shoot apical meristem

scientific article published in 2022

Optimization and model reduction in the high dimensional parameter space of a budding yeast cell cycle model.

scientific article

Oscillatory dynamics of cell cycle proteins in single yeast cells analyzed by imaging cytometry

scientific article

Parameter estimation for a mathematical model of the cell cycle in frog eggs.

scientific article

Periodic enzyme synthesis and oscillatory repression: Why is the period of oscillation close to the cell cycle time? ⬇️

scientific article published on July 21, 1983

Periodic enzyme synthesis: Reconsideration of the theory of oscillatory repression ⬇️

scientific article published on September 7, 1979

Periodic forcing of a mathematical model of the eukaryotic cell cycle

scientific article

Potential role of a bistable histidine kinase switch in the asymmetric division cycle of Caulobacter crescentus

scientific article

Propagation of waves through a line of discontinuity in two-dimensional excitable media: Refraction and reflection of autowaves

scientific article published on 01 August 1996

Quasi-Newton Stochastic Optimization Algorithm for Parameter Estimation of a Stochastic Model of the Budding Yeast Cell Cycle

scientific article published on 14 November 2017

Regulated protein kinases and phosphatases in cell cycle decisions

scientific article published on 02 August 2010

Regulation of the eukaryotic cell cycle: molecular antagonism, hysteresis, and irreversible transitions

scientific article

Role for regulated phosphatase activity in generating mitotic oscillations in Xenopus cell-free extracts.

scientific article published on 02 December 2013

Spatial controls for growth zone formation during the fission yeast cell cycle

scientific article

Steady states and oscillations in the p53/Mdm2 network.

scientific article

Stochastic exit from mitosis in budding yeast: model predictions and experimental observations

scientific article

Stochastic simulation of enzyme-catalyzed reactions with disparate timescales

scientific article published on 11 July 2008

Synchronization of eukaryotic cells by periodic forcing

scientific article published on 12 April 2006

System-level feedbacks control cell cycle progression.

scientific article published on December 2009

System-level feedbacks make the anaphase switch irreversible

scientific article

Systems biologists seek fuller integration of systems biology approaches in new cancer research programs

scientific article

Temporal controls of the asymmetric cell division cycle in Caulobacter crescentus

scientific article published in August 2009

Temporal organization of the cell cycle

scientific article published on September 2008

The JigCell model builder: a spreadsheet interface for creating biochemical reaction network models.

scientific article

The distributions of cell size and generation time in a model of the cell cycle incorporating size control and random transitions.

scientific article published in March 1985

The dynamics of cell cycle regulation.

scientific article

The interleukin-1 receptor-associated kinase M selectively inhibits the alternative, instead of the classical NFkappaB pathway

scientific article published on January 2009

Top-down network analysis to drive bottom-up modeling of physiological processes

scientific article published on May 2013

Turbulence near cyclic fold bifurcations in birhythmic media.

scientific article

Unstable activator models for size control of the cell cycle.

scientific article

the JigCell model builder and run manager.

scientific article

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