Hidden-Markov Methods for the Analysis of Single-Molecule Actomyosin Displacement Data: The Variance-Hidden-Markov Method
نویسندگان
چکیده
منابع مشابه
Hidden-Markov methods for the analysis of single-molecule actomyosin displacement data: the variance-Hidden-Markov method.
In single-molecule experiments on the interaction between myosin and actin, mechanical events are embedded in Brownian noise. Methods of detecting events have progressed from simple manual detection of shifts in the position record to threshold-based selection of intermittent periods of reduction in noise. However, none of these methods provides a "best fit" to the data. We have developed a Hid...
متن کاملTaylor Expansion for the Entropy Rate of Hidden Markov Chains
We study the entropy rate of a hidden Markov process, defined by observing the output of a symmetric channel whose input is a first order Markov process. Although this definition is very simple, obtaining the exact amount of entropy rate in calculation is an open problem. We introduce some probability matrices based on Markov chain's and channel's parameters. Then, we try to obtain an estimate ...
متن کاملAnalysis of single-molecule FRET trajectories using hidden Markov modeling.
The analysis of single-molecule fluorescence resonance energy transfer (FRET) trajectories has become one of significant biophysical interest. In deducing the transition rates between various states of a system for time-binned data, researchers have relied on simple, but often arbitrary methods of extracting rates from FRET trajectories. Although these methods have proven satisfactory in cases ...
متن کاملSmall-Variance Asymptotics for Hidden Markov Models
Small-variance asymptotics provide an emerging technique for obtaining scalable combinatorial algorithms from rich probabilistic models. We present a smallvariance asymptotic analysis of the Hidden Markov Model and its infinite-state Bayesian nonparametric extension. Starting with the standard HMM, we first derive a “hard” inference algorithm analogous to k-means that arises when particular var...
متن کاملHidden Semi-Markov Models for Single-Molecule Conformational Dynamics
The conformational kinetics of enzymes can be reliably revealed when they are governed by Markovian dynamics. Hidden Markov Models (HMMs) are appropriate especially in the case of conformational states that are hardly distinguishable. However, the evolution of the conformational states of proteins mostly shows non-Markovian behavior, recognizable by non-monoexponential state dwell time histogra...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Biophysical Journal
سال: 2001
ISSN: 0006-3495
DOI: 10.1016/s0006-3495(01)75922-x