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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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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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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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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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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A Multiple Sequence Alignment Algorithm Based on a Hidden Markov Model and Immune Particle Swarm Optimization

Journal of Computer Research and Development ◽

10.1360/crad20060804 ◽

2006 ◽

Vol 43 (8) ◽

pp. 1330 ◽

Author(s):

Hongwei Ge

Keyword(s):

Particle Swarm Optimization ◽

Markov Model ◽

Hidden Markov Model ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Hidden Markov ◽

Alignment Algorithm ◽

Multiple Sequence ◽

Swarm Optimization ◽

Sequence Alignment Algorithm

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Multiple Sequence Alignment by Improved Hidden Markov Model Training and Quantum-Behaved Particle Swarm Optimization

Lecture Notes in Computer Science - Life System Modeling and Intelligent Computing ◽

10.1007/978-3-642-15615-1_43 ◽

2010 ◽

pp. 358-366 ◽

Author(s):

Chengyuan Li ◽

Haixia Long ◽

Yanrui Ding ◽

Jun Sun ◽

Wenbo Xu

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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Improved Hidden Markov Model training for multiple sequence alignment by a particle swarm optimization—evolutionary algorithm hybrid

10.1016/s0303-2647(03)00131-x ◽

2003 ◽

Vol 72 (1-2) ◽

pp. 5-17 ◽

Author(s):

Thomas Kiel Rasmussen ◽

Thiemo Krink

Keyword(s):

Particle Swarm Optimization ◽

Markov Model ◽

Hidden Markov Model ◽

Evolutionary Algorithm ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Hidden Markov ◽

Multiple Sequence ◽

Swarm Optimization ◽

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ProbPFP: A Multiple Sequence Alignment Algorithm Combining Partition Function and Hidden Markov Model with Particle Swarm Optimization

2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) ◽

10.1109/bibm.2018.8621220 ◽

2018 ◽

Author(s):

Qing Zhan ◽

Nan Wang ◽

Shuilin Jin ◽

Renjie Tan ◽

Qinghua Jiang ◽

...

Keyword(s):

Particle Swarm Optimization ◽

Partition Function ◽

Markov Model ◽

Sequence Alignment ◽

Multiple Sequence Alignment ◽

Hidden Markov ◽

Alignment Algorithm ◽

Multiple Sequence ◽

Swarm Optimization ◽

Sequence Alignment Algorithm

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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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