Moving average filtering with deconvolution (MAD) for hidden Markov model with filtering and correlated noise.

Ion channel data recorded using the patch clamp technique are low-pass filtered to remove high-frequency noise. Almanjahie et al. (Eur Biophys J 44:545-556, 2015) based statistical analysis of such data on a hidden Markov model (HMM) with a moving average adjustment for the filter but without correlated noise, and used the EM algorithm for parameter estimation.

Hidden Markov analysis of improved bandwidth mechanosensitive ion channel data.

The gating behaviour of a single ion channel can be described by hidden Markov models (HMMs), forming the basis for statistical analysis of patch clamp data. Extensive improved bandwidth (25 kHz, 50 kHz) data from the mechanosensitive channel of large conductance in Escherichia coli  were analysed using HMMs, and HMMs with a moving average adjustment for filtering. The aim was to determine the number of levels, and mean current, mean dwell time and proportion of time at each level.

Hidden Markov analysis of mechanosensitive ion channel gating.

Patch clamp data from the large conductance mechanosensitive channel (MscL) in E. coli was studied with the aim of developing a strategy for statistical analysis based on hidden Markov models (HMMs) and determining the number of conductance levels of the channel, together with mean current, mean dwell time and equilibrium probability of occupancy for each level. The models incorporated state-dependent white noise and moving average adjustment for filtering, with maximum likelihood parameter estimates obtained using an EM (expectation-maximisation) based iteration.

A unified approach to burst properties of multiconductance single ion channels.

Patch clamp recordings from ion channels often show bursting behaviour, that is periods of repetitive activity, which are noticeably separated from each other by periods of inactivity. In this paper, bursting behaviour is considered for a general finite state space continuous-time Markov chain model of channel gating, allowing for one or more non-zero conductance levels. A unified semi-Markov framework, that encompasses both theoretical and empirical bursts, is described for analysing a broad range of properties of bursts, including the total charge transfer, the number of sojourns at distinct conductance levels and the number of openings in a burst, with the results presented when the channel is in equilibrium.