MUMMALS: multiple sequence alignment improved by using hidden Markov models with local structural information

Nucleic Acids Research ◽

10.1093/nar/gkl514 ◽

2006 ◽

Vol 34 (16) ◽

pp. 4364-4374 ◽

Author(s):

Jimin Pei ◽

Nick V. Grishin

Keyword(s):

Hidden Markov Models ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Markov Models ◽

Structural Information ◽

Hidden Markov ◽

Multiple Sequence

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Multiple Sequence Alignment with Pro le Hidden Markov Models

10.31979/etd.vub9-j9hc ◽

2016 ◽

Author(s):

Shubhangi Rakhonde

Keyword(s):

Hidden Markov Models ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Markov Models ◽

Hidden Markov ◽

Multiple Sequence

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Multiple Sequence Alignment with Hidden Markov Models Learned by Random Drift Particle Swarm Optimization

IEEE/ACM Transactions on Computational Biology and Bioinformatics ◽

10.1109/tcbb.2013.148 ◽

2014 ◽

Vol 11 (1) ◽

pp. 243-257 ◽

Author(s):

Jun Sun ◽

Vasile Palade ◽

Xiaojun Wu ◽

Wei Fang

Keyword(s):

Particle Swarm Optimization ◽

Hidden Markov Models ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Markov Models ◽

Hidden Markov ◽

Random Drift ◽

Multiple Sequence ◽

Swarm Optimization ◽

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MSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities

Bioinformatics ◽

10.1093/bioinformatics/btq338 ◽

2010 ◽

Vol 26 (16) ◽

pp. 1958-1964 ◽

Author(s):

Y. Liu ◽

B. Schmidt ◽

D. L. Maskell

Keyword(s):

Partition Function ◽

Hidden Markov Models ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Markov Models ◽

Hidden Markov ◽

Posterior Probabilities ◽

Multiple Sequence

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Design and implementation of bi-level artificial bee colony algorithm to train hidden Markov models for performing multiple sequence alignment of proteins

International Journal of Swarm Intelligence ◽

10.1504/ijsi.2021.10037384 ◽

2021 ◽

Vol 6 (1) ◽

pp. 48

Author(s):

Soniya Lalwani

Keyword(s):

Hidden Markov Models ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Artificial Bee Colony Algorithm ◽

Artificial Bee Colony ◽

Markov Models ◽

Hidden Markov ◽

Multiple Sequence ◽

Design And Implementation ◽

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Multiple Sequence Alignment and Profile Analysis of Protein Family Utsing Hidden Markov Model

International Journal of Scientific Research ◽

10.15373/22778179/june2013/66 ◽

2012 ◽

Vol 2 (6) ◽

pp. 208-211

Author(s):

Navjot Kaur ◽

◽

Rajbir Singh Cheema ◽

Harmandeep Singh Harmandeep Singh

Keyword(s):

Markov Model ◽

Hidden Markov Model ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Profile Analysis ◽

Hidden Markov ◽

Protein Family ◽

Multiple Sequence

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Multiple sequence alignment using the Hidden Markov Model trained by an improved quantum-behaved particle swarm optimization

Information Sciences ◽

10.1016/j.ins.2010.11.014 ◽

2012 ◽

Vol 182 (1) ◽

pp. 93-114 ◽

Author(s):

Jun Sun ◽

Xiaojun Wu ◽

Wei Fang ◽

Yangrui Ding ◽

Haixia Long ◽

...

Keyword(s):

Particle Swarm Optimization ◽

Markov Model ◽

Hidden Markov Model ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Hidden Markov ◽

Particle Swarm ◽

Multiple Sequence ◽

Swarm Optimization

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A Hidden Markov Model and Immune Particle Swarm Optimization-Based Algorithm for Multiple Sequence Alignment

AI 2005: Advances in Artificial Intelligence - Lecture Notes in Computer Science ◽

10.1007/11589990_78 ◽

2005 ◽

pp. 756-765 ◽

Author(s):

Hong-Wei Ge ◽

Yan-Chun Liang

Keyword(s):

Particle Swarm Optimization ◽

Markov Model ◽

Hidden Markov Model ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Hidden Markov ◽

Particle Swarm ◽

Multiple Sequence ◽

Swarm Optimization

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Correction to: Enhancing Statistical Multiple Sequence Alignment and Tree Inference Using Structural Information

Methods in Molecular Biology - Computational Methods in Protein Evolution ◽

10.1007/978-1-4939-8736-8_23 ◽

2018 ◽

pp. E1-E1

Author(s):

Joseph L. Herman

Keyword(s):

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Structural Information ◽

Multiple Sequence ◽

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Global pairwise sequence alignment using Hidden Markov Models applied through different scoring schemes

Proceedings of 2012 IEEE-EMBS International Conference on Biomedical and Health Informatics ◽

10.1109/bhi.2012.6211743 ◽

2012 ◽

Author(s):

M. Duran ◽

I. O. Bucak

Keyword(s):

Hidden Markov Models ◽

Sequence Alignment ◽

Markov Models ◽

Hidden Markov ◽

Pairwise Sequence Alignment ◽

Scoring Schemes

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SIMULTANEOUS SEQUENCE ALIGNMENT AND TREE CONSTRUCTION USING HIDDEN MARKOV MODELS

Biocomputing 2003 ◽

10.1142/9789812776303_0018 ◽

2002 ◽

Author(s):

ROBERT C. EDGAR ◽

KIMMEN SJÖLANDER

Keyword(s):

Hidden Markov Models ◽

Sequence Alignment ◽

Markov Models ◽

Hidden Markov ◽

Tree Construction

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