scholarly journals Classification of human vs. non-human, and subtyping of human influenza viral strains using Profile Hidden Markov Models

2011 ◽  
Author(s):  
Fayroz F. Sherif ◽  
Yasser Kadah ◽  
Mahmoud El-Hefnawi
Keyword(s):  
Hidden Markov Models ◽  
Markov Models ◽  
Hidden Markov ◽  
Human Influenza ◽  
Profile Hidden Markov Models

scholarly journals CutProtFam-Pred: Detection and classification of putative structural cuticular proteins from sequence alone, based on profile Hidden Markov Models

2014 ◽  
Vol 52 ◽  
pp. 51-59 ◽  
Author(s):  
Zoi S. Ioannidou ◽  
Margarita C. Theodoropoulou ◽  
Nikos C. Papandreou ◽  
Judith H. Willis ◽  
Stavros J. Hamodrakas
Keyword(s):  
Hidden Markov Models ◽  
Markov Models ◽  
Hidden Markov ◽  
Profile Hidden Markov Models ◽  
Cuticular Proteins

scholarly journals Classification of HIV-1 Sequences Using Profile Hidden Markov Models

PLoS ONE ◽  
2012 ◽  
Vol 7 (5) ◽  
pp. e36566 ◽  
Author(s):  
Sanjiv K. Dwivedi ◽  
Supratim Sengupta
Keyword(s):  
Hidden Markov Models ◽  
Markov Models ◽  
Hidden Markov ◽  
Profile Hidden Markov Models ◽  
Hiv 1

Identification and classification of conopeptides using profile Hidden Markov Models

2012 ◽  
Vol 1824 (3) ◽  
pp. 488-492 ◽  
Author(s):  
Silja Laht ◽  
Dominique Koua ◽  
Lauris Kaplinski ◽  
Frédérique Lisacek ◽  
Reto Stöcklin ◽  
...  
Keyword(s):  
Hidden Markov Models ◽  
Markov Models ◽  
Hidden Markov ◽  
Profile Hidden Markov Models

INFLUENZA A SUBTYPING AND HOST ORIGIN CLASSIFICATION USING PROFILE HIDDEN MARKOV MODELS

2012 ◽  
Vol 12 (02) ◽  
pp. 1240009 ◽  
Author(s):  
FAYROZ F. SHERIF ◽  
YASSER M. KADAH ◽  
MAHMOUD EL-HEFNAWI
Keyword(s):  
Hidden Markov Models ◽  
Influenza A ◽  
Markov Models ◽  
Hidden Markov ◽  
High Morbidity ◽  
Human Influenza ◽  
Sequence Alignments ◽  
Multiple Sequence ◽  
Multiple Sequence Alignments ◽  
Profile Hidden Markov Models

Influenza is one of the most important emerging and reemerging infectious diseases, causing high morbidity and mortality in communities (epidemic) and worldwide (pandemic). Here, classification of human vs. non-human influenza, and subtyping of human influenza viral strains virus is done based on profile hidden Markov models (HMM). The classical ways of determining influenza viral subtypes depend mainly on antigenic assays, which is time-consuming and not fully accurate. The introduced technique is much cheaper and faster, yet usually can still yield high accuracy. Multiple sequence alignments were done for the 16 HA subtypes and 9 NA subtypes, followed by profile-HMMs models generation, calibration and evaluation using the HMMER suite for each group. Subtyping accuracy of all HA and NA models achieved 100%, while host classification achieved accuracies around 53% and 95.1% according to HA subtype.

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