Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum

Fitting hidden Markov models to psychological data

Markov models have been used extensively in psychology of learning. Applications of hidden Markov models are rare however. This is partially due to the fact that comprehensive statistics for model selection and model assessment are lacking in the psychological literature. We present model selection and model assessment statistics that are particularly useful in applying hidden Markov models in ...

RESISTANCE OF PLASMODIUM FALCIPARUM TO CHLOROQUINE IN SOUTH EASTERN IRAN

In vivo and in vitro assessments of the response of P. falciparum to chloroquine using WHO standard kits and techniques were carried out in I ran Shahr, Sistan and Baluchestan province of Iran in 1985. In the in vivo assessment, 24 malaria patients treated with chloroquine (25mg/kg over three days) were followed up for one to four weeks. The mean parasite clearance time was 4.3 days and in...

Application of Hidden Markov Models and Hidden Semi-Markov Models to Financial Time Series

Detection of new protein domains using co-occurrence: application to Plasmodium falciparum

MOTIVATION Hidden Markov models (HMMs) have proved to be a powerful tool for protein domain identification in newly sequenced organisms. However, numerous domains may be missed in highly divergent proteins. This is the case for Plasmodium falciparum proteins, the main causal agent of human malaria. RESULTS We propose a method to improve the sensitivity of HMM domain detection by exploiting th...

Introduction to Hidden Markov Models

A. Definition A hidden Markov model is a tool for representing probability distributions over sequences of observations [1]. In this model, an observation Xt at time t is produced by a stochastic process, but the state Zt of this process cannot be directly observed, i.e. it is hidden [2]. This hidden process is assumed to satisfy the Markov property, where state Zt at time t depends only on the...