Protein folding estimation using Paired-Bacteria Optimizer

Mengshi Li; Tianyao Ji; Peter Wu; Shan He; Qinghua Wu

doi:10.1109/CEC.2014.6900467

Protein folding estimation using Paired-Bacteria Optimizer

Mengshi Li^*, Tianyao Ji, Peter Wu, Shan He, Qinghua Wu

^*Corresponding author for this work

Computer Science

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

Protein folding estimation attracts a large attention in the area of computational biology, due to its benefits on medical research and the challenge of NP-hard objective functions. In order to simulate the protein folding procedure and estimate the structure of the protein after folding, this paper adopts a Paired-Bacteria Optimizer (PBO), which is a biologically-inspired optimization algorithm. Compared with most Evolutionary Algorithms (EAs), the computational complexity of PBO is much less. Therefore, it is suitable to be applied to solve NP-hard problem. The experimental studies is performed on several benchmark lattice protein combination. The experimental results demonstrated that PBO is able to estimate the folded protein structure with a superior convergence.

Original language	English
Title of host publication	Proceedings of the 2014 IEEE Congress on Evolutionary Computation, CEC 2014
Publisher	Institute of Electrical and Electronics Engineers (IEEE)
Pages	2027-2032
Number of pages	6
ISBN (Print)	9781479914883
DOIs	https://doi.org/10.1109/CEC.2014.6900467
Publication status	Published - 16 Sept 2014
Event	2014 IEEE Congress on Evolutionary Computation, CEC 2014 - Beijing, China Duration: 6 Jul 2014 → 11 Jul 2014

Conference

Conference	2014 IEEE Congress on Evolutionary Computation, CEC 2014
Country/Territory	China
City	Beijing
Period	6/07/14 → 11/07/14

Keywords

optimization
paired-bacteria optimizer
Protein folding

ASJC Scopus subject areas

Artificial Intelligence
Computational Theory and Mathematics
Theoretical Computer Science

Access to Document

10.1109/CEC.2014.6900467

Cite this

@inproceedings{89c59dba0d6e4870aca4f81d7d8a3b36,

title = "Protein folding estimation using Paired-Bacteria Optimizer",

abstract = "Protein folding estimation attracts a large attention in the area of computational biology, due to its benefits on medical research and the challenge of NP-hard objective functions. In order to simulate the protein folding procedure and estimate the structure of the protein after folding, this paper adopts a Paired-Bacteria Optimizer (PBO), which is a biologically-inspired optimization algorithm. Compared with most Evolutionary Algorithms (EAs), the computational complexity of PBO is much less. Therefore, it is suitable to be applied to solve NP-hard problem. The experimental studies is performed on several benchmark lattice protein combination. The experimental results demonstrated that PBO is able to estimate the folded protein structure with a superior convergence.",

keywords = "optimization, paired-bacteria optimizer, Protein folding",

author = "Mengshi Li and Tianyao Ji and Peter Wu and Shan He and Qinghua Wu",

year = "2014",

month = sep,

day = "16",

doi = "10.1109/CEC.2014.6900467",

language = "English",

isbn = "9781479914883",

pages = "2027--2032",

booktitle = "Proceedings of the 2014 IEEE Congress on Evolutionary Computation, CEC 2014",

publisher = "Institute of Electrical and Electronics Engineers (IEEE)",

note = "2014 IEEE Congress on Evolutionary Computation, CEC 2014 ; Conference date: 06-07-2014 Through 11-07-2014",

}

Li, M, Ji, T, Wu, P, He, S & Wu, Q 2014, Protein folding estimation using Paired-Bacteria Optimizer. in Proceedings of the 2014 IEEE Congress on Evolutionary Computation, CEC 2014., 6900467, Institute of Electrical and Electronics Engineers (IEEE), pp. 2027-2032, 2014 IEEE Congress on Evolutionary Computation, CEC 2014, Beijing, China, 6/07/14. https://doi.org/10.1109/CEC.2014.6900467

TY - GEN

T1 - Protein folding estimation using Paired-Bacteria Optimizer

AU - Li, Mengshi

AU - Ji, Tianyao

AU - Wu, Peter

AU - He, Shan

AU - Wu, Qinghua

PY - 2014/9/16

Y1 - 2014/9/16

N2 - Protein folding estimation attracts a large attention in the area of computational biology, due to its benefits on medical research and the challenge of NP-hard objective functions. In order to simulate the protein folding procedure and estimate the structure of the protein after folding, this paper adopts a Paired-Bacteria Optimizer (PBO), which is a biologically-inspired optimization algorithm. Compared with most Evolutionary Algorithms (EAs), the computational complexity of PBO is much less. Therefore, it is suitable to be applied to solve NP-hard problem. The experimental studies is performed on several benchmark lattice protein combination. The experimental results demonstrated that PBO is able to estimate the folded protein structure with a superior convergence.

AB - Protein folding estimation attracts a large attention in the area of computational biology, due to its benefits on medical research and the challenge of NP-hard objective functions. In order to simulate the protein folding procedure and estimate the structure of the protein after folding, this paper adopts a Paired-Bacteria Optimizer (PBO), which is a biologically-inspired optimization algorithm. Compared with most Evolutionary Algorithms (EAs), the computational complexity of PBO is much less. Therefore, it is suitable to be applied to solve NP-hard problem. The experimental studies is performed on several benchmark lattice protein combination. The experimental results demonstrated that PBO is able to estimate the folded protein structure with a superior convergence.

KW - optimization

KW - paired-bacteria optimizer

KW - Protein folding

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U2 - 10.1109/CEC.2014.6900467

DO - 10.1109/CEC.2014.6900467

M3 - Conference contribution

AN - SCOPUS:84908573785

SN - 9781479914883

SP - 2027

EP - 2032

BT - Proceedings of the 2014 IEEE Congress on Evolutionary Computation, CEC 2014

PB - Institute of Electrical and Electronics Engineers (IEEE)

T2 - 2014 IEEE Congress on Evolutionary Computation, CEC 2014

Y2 - 6 July 2014 through 11 July 2014

ER -

Protein folding estimation using Paired-Bacteria Optimizer

Abstract

Conference

Keywords

ASJC Scopus subject areas

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