This paper proposes Metropolis adjusted Langevin and Hamiltonian Monte Carlo sampling methods defined on the Riemann manifold to resolve the shortcomings of existing Monte Carlo algorithms when sampling from target densities that may be high dimensional and exhibit strong correlations. The methods provide fully automated adaptation mechanisms that… (More)
Identification and comparison of nonlinear dynamical system models using noisy and sparse experimental data is a vital task in many fields, however current methods are computationally expensive and prone to error due in part to the nonlinear nature of the likelihood surfaces induced. We present an accelerated sampling procedure which enables Bayesian… (More)
Markov chain Monte Carlo methods (MCMC) are essential tools for solving many modern-day statistical and computational problems; however, a major limitation is the inherently sequential nature of these algorithms. In this paper, we propose a natural generalization of the Metropolis-Hastings algorithm that allows for parallelizing a single chain using… (More)
One of the enduring challenges in Markov chain Monte Carlo methodology is the development of proposal mechanisms to make moves distant from the current point, that are accepted with high probability and at low computational cost. The recent introduction of locally adaptive MCMC methods based on the natural underlying Riemannian geometry of such models goes… (More)
The stochastic behavior of single ion channels is most often described as an aggregated continuous-time Markov process with discrete states. For ligand-gated channels each state can represent a different conformation of the channel protein or a different number of bound ligands. Single-channel recordings show only whether the channel is open or shut: states… (More)
Science hackathons can help academics, particularly those in the early stage of their careers, to build collaborations and write research proposals.
Parameter estimation for differential equation models of intracellular processes is a highly relevant bu challenging task. The available experimental data do not usually contain enough information to identify all parameters uniquely, resulting in ill-posed estimation problems with often highly correlated parameters. Sampling-based Bayesian statistical… (More)