News Update on Hidden Markov Model Research: Dec – 2019

Profile hidden Markov models.

The recent literature on profile hidden Andrei Markov model (profile HMM) strategies and software package is reviewed. Profile HMMs flip a multiple sequence alignment into a position-specific rating system appropriate for looking out databases for remotely homologous sequences. Profile HMM analyses complement normal pairwise comparison strategies for large-scale sequence analysis. many software package implementations and 2 giant libraries of profile HMMs of common macromolecule domains square measure out there. HMM strategies performed comparably to threading strategies within the CASP2 structure prediction exercise. [1]

Hidden Markov models

‘Profiles’ of protein systems and sequence alignments can stumble on subtle homologies. Profile analysis has been put on more impregnable mathematical ground via the creation of hidden Markov version (HMM) methods. During the past yr, programs of these effective new HMM-based totally profiles have all started to appear inside the fields of protein-structure prediction and huge-scale genome-sequence evaluation. [2]

Recognizing human action in time-sequential images using hidden Markov model

A human action recognition technique supported a hidden Andre Markoff model (HMM) is projected. it’s a feature-based bottom-up approach that’s characterised by its learning capability and time-scale invariability. to use HMMs, one set of time-sequential pictures is reworked into a picture feature vector sequence, and also the sequence is reborn into a logo sequence by vector quantisation. In learning act classes, the parameters of the HMMs, one per class, area unit optimized therefore on best describe the coaching sequences from the class. to acknowledge AN discovered sequence, the HMM that best matches the sequence is chosen. Experimental results for real time-sequential pictures of sports scenes show recognition rates above ninetieth. the popularity rate is improved by increasing the amount of individuals accustomed generate the coaching knowledge, indicating the likelihood of building a person-independent action recognizer. [3]

Parameter Estimation for Hidden Markov models with Intractable Likelihoods

In this talk I keep in mind sequential Monte Carlo (SMC) strategies for hidden Markov models. In the state of affairs for which the conditional density of the observations given the latent state is intractable we supply a simple ABC approximation of the version at the side of some simple SMC algorithms for sampling from the associated filtering distribution. Then, we don’t forget the hassle of smoothing, given get entry to to a batch records set. We present a simulation method which combines ahead best smoothing (Del Moral et al, 2011) and particle Markov chain Monte Carlo (Andrieu et al 2010), for an algorithm which scales linearly in the wide variety of particles. [4]

Missclassification of HIV Disease Stages with Continuous Time Hidden Markov Models

The motive of this observe is to find out the clean Markov and Hidden Markov models with continuous time to analyze illness development of HIV/AIDS patients beneath ART observe-up at Shashemene Referral Hospital, Ethiopia. The msm R package deal is used for the evaluation. Results from the clean Markov version reveals that the ailment development of the HIV/AIDS sufferers considered tend to transport closer to the healthier than the more severe state. The endorse geared up time for the healthiest nation is drastically higher than the opposite brief states. The standard time period stay in a state declines with severity of the disease ranges. Analysis of the misclassification model offers transition prices of the actual states. Estimation of the transition quotes of the real states are located to be highly smaller in comparison to the ones obtained with the resource of the easy Markov model. For the actual states compared to observed ones, the conditional chance of transferring to the healthiest nation from the next worse usa grows higher dramatically, at the same time as that of shifting to subsequent worst nation grows slightly lower. [5]

Reference

[1] Eddy, S.R., 1998. Profile hidden Markov models. Bioinformatics (Oxford, England), 14(9), (Web Link)

[2] Eddy, S.R., 1996. Hidden markov models. Current opinion in structural biology, 6(3), (Web Link)

[3] Yamato, J., Ohya, J. and Ishii, K., 1992, June. Recognizing human action in time-sequential images using hidden markov model. In Proceedings 1992 IEEE Computer Society conference on computer vision and pattern recognition (pp. 379-385). IEEE. (Web Link)

[4] Parameter Estimation for Hidden Markov models with Intractable Likelihoods
Ajay Jasra, Thomas Dean, Sumeetpal Simgh & Gareth Peters
Nature Precedings (2011) (Web Link)

[5] Habtemichael, T., Goshu, A. and Buta, G. (2018) “Missclassification of HIV Disease Stages with Continuous Time Hidden Markov Models”, Journal of Advances in Medicine and Medical Research, 25(11), (Web Link)