An evolutionary epigenetic clock in plants
Molecular clocks are the basis for dating the divergence between lineages over
macroevolutionary timescales (~ 105 to 108 years). However, classical DNA-based clocks …
macroevolutionary timescales (~ 105 to 108 years). However, classical DNA-based clocks …
State space truncation with quantified errors for accurate solutions to discrete chemical master equation
The discrete chemical master equation (dCME) provides a general framework for studying
stochasticity in mesoscopic reaction networks. Since its direct solution rapidly becomes …
stochasticity in mesoscopic reaction networks. Since its direct solution rapidly becomes …
Efficient data augmentation for fitting stochastic epidemic models to prevalence data
Stochastic epidemic models describe the dynamics of an epidemic as a disease spreads
through a population. Typically, only a fraction of cases are observed at a set of discrete …
through a population. Typically, only a fraction of cases are observed at a set of discrete …
Find your place: Simple distributed algorithms for community detection
Given an underlying graph, we consider the following dynamics: Initially, each node locally
chooses a value in {-1,1\}, uniformly at random and independently of other nodes. Then, in …
chooses a value in {-1,1\}, uniformly at random and independently of other nodes. Then, in …
Markov chain lumpability and applications to credit risk modelling in compliance with the International Financial Reporting Standard 9 framework
K Georgiou, GN Domazakis, D Pappas… - European Journal of …, 2021 - Elsevier
The aim of this paper is threefold. Firstly, we define the necessary quantities associated to
the lumpability of a Markov chain and study their fundamental properties. Secondly, we …
the lumpability of a Markov chain and study their fundamental properties. Secondly, we …
Lumpability abstractions of rule-based systems
The induction of a signaling pathway is characterized by transient complex formation and
mutual posttranslational modification of proteins. To faithfully capture this combinatorial …
mutual posttranslational modification of proteins. To faithfully capture this combinatorial …
Multiscale modelling and analysis of collective decision making in swarm robotics
We present a unified approach to describing certain types of collective decision making in
swarm robotics that bridges from a microscopic individual-based description to aggregate …
swarm robotics that bridges from a microscopic individual-based description to aggregate …
Study on the systematic approach of Markov modeling for dependability analysis of complex fault-tolerant features with voting logics
The Markov analysis is a technique for modeling system state transitions and calculating the
probability of reaching various system states. While it is a proper tool for modeling complex …
probability of reaching various system states. While it is a proper tool for modeling complex …
Markov chain aggregation and its applications to combinatorial reaction networks
We consider a continuous-time Markov chain (CTMC) whose state space is partitioned into
aggregates, and each aggregate is assigned a probability measure. A sufficient condition for …
aggregates, and each aggregate is assigned a probability measure. A sufficient condition for …
A likelihood-ratio test for lumpability of phylogenetic data: is the Markovian property of an evolutionary process retained in recoded DNA?
VA Vera-Ruiz, J Robinson, LS Jermiin - Systematic Biology, 2022 - academic.oup.com
In molecular phylogenetics, it is typically assumed that the evolutionary process for DNA can
be approximated by independent and identically distributed Markovian processes at the …
be approximated by independent and identically distributed Markovian processes at the …