Journal of Proteomics & Bioinformatics

Journal of Proteomics & Bioinformatics
Open Access

ISSN: 0974-276X

Hamid Pezeshk

Hamid Pezeshk
School of Mathematics, Statistics and Computer Science, University of Tehran and Institute for Research in Fundamental Sciences (IPM),
Tehran
West Indies

Publications
  • Research Article
    A Modified Hidden Markov Model and Its Application in Protein Secondary Structure Prediction
    Author(s): Sima Naghizadeh, Vahid Rezaeitabar, Hamid Pezeshk and David MatthewsSima Naghizadeh, Vahid Rezaeitabar, Hamid Pezeshk and David Matthews

    One of the important tools in analyzing and modeling biological data is the Hidden Markov Model (HMM), which is used for gene prediction, protein secondary structure and other essential tasks. An HMM is a stochastic process in which a hidden Markov chain called; the chain of states, emits a sequence of observations. Using this sequence, various questions about the underlying emission generation scheme can be addressed. Applying an HMM to any particular situation is an attempt to infer which state in the chain emits an observation. This is usually called posterior decoding. In general, the emissions are assumed to be conditionally independent from each other. In this work we consider some dependencies among the states and emissions. The aim of our research is to study a certain relationship among emissions, with a focus on the Markov property. We assume that the probability of observin.. View More»
    DOI: 10.4172/jpb.1000209

    Abstract PDF

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