Dynamics of posttranslational modification systems: Recent progress and future directions

C Conradi, A Shiu - Biophysical journal, 2018 - cell.com
Posttranslational modification of proteins is important for signal transduction, and hence
significant effort has gone toward understanding how posttranslational modification …

[图书][B] Stochastic analysis of biochemical systems

DF Anderson, TG Kurtz - 2015 - Springer
This book, as with others in the series, is intended to provide supplementary material for
courses in probability or stochastic processes. The mathematical focus is on counting …

Identifying parameter regions for multistationarity

C Conradi, E Feliu, M Mincheva… - PLoS computational …, 2017 - journals.plos.org
Mathematical modelling has become an established tool for studying the dynamics of
biological systems. Current applications range from building models that reproduce …

Sign conditions for injectivity of generalized polynomial maps with applications to chemical reaction networks and real algebraic geometry

S Müller, E Feliu, G Regensburger, C Conradi… - Foundations of …, 2016 - Springer
We give necessary and sufficient conditions in terms of sign vectors for the injectivity of
families of polynomial maps with arbitrary real exponents defined on the positive orthant …

A framework for deriving analytic steady states of biochemical reaction networks

BS Hernandez, PVN Lubenia… - PLoS computational …, 2023 - journals.plos.org
The long-term behaviors of biochemical systems are often described by their steady states.
Deriving these states directly for complex networks arising from real-world applications …

Generalized mass action systems: Complex balancing equilibria and sign vectors of the stoichiometric and kinetic-order subspaces

S Muller, G Regensburger - SIAM Journal on Applied Mathematics, 2012 - SIAM
Mass action systems capture chemical reaction networks in homogeneous and dilute
solutions. We suggest a notion of generalized mass action systems that admits arbitrary …

Multistationarity in structured reaction networks

A Dickenstein, MP Millan, A Shiu, X Tang - Bulletin of Mathematical …, 2019 - Springer
Many dynamical systems arising in biology and other areas exhibit multistationarity (two or
more positive steady states with the same conserved quantities). Although deciding …

Unstable cores are the source of instability in chemical reaction networks

N Vassena, PF Stadler - Proceedings of the Royal …, 2024 - royalsocietypublishing.org
In biochemical networks, complex dynamical features such as superlinear growth and
oscillations are classically considered a consequence of autocatalysis. For the large class of …

Topological descriptors of the parameter region of multistationarity: Deciding upon connectivity

ML Telek, E Feliu - PLOS Computational Biology, 2023 - journals.plos.org
Switch-like responses arising from bistability have been linked to cell signaling processes
and memory. Revealing the shape and properties of the set of parameters that lead to …

Simplifying biochemical models with intermediate species

E Feliu, C Wiuf - Journal of the royal society interface, 2013 - royalsocietypublishing.org
Mathematical models are increasingly being used to understand complex biochemical
systems, to analyse experimental data and make predictions about unobserved quantities …