An overview of multiple sequence alignment methods applied to transmembrane proteins

Cristian Zambrano-Vega; Byron Oviedo; Ronald Villamar-Torres; Miguel Botto-Tobar; Marcos Barros-Rodríguez

doi:10.1007/978-3-030-05532-5_30

An overview of multiple sequence alignment methods applied to transmembrane proteins

Cristian Zambrano-Vega, Byron Oviedo, Ronald Villamar-Torres, Miguel Botto-Tobar, Marcos Barros-Rodríguez

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Academic › peer-review

Abstract

Transmembrane proteins (TMPs) have received a great deal of attention playing a fundamental role in cell biology and are considered to constitute around 30% of proteins at genomic scale. Multiple Sequence Alignment (MSA) problem has been studied for some years and researchers have proposed many heuristic and stochastic techniques tailored for sequences of soluble proteins, considering that there are a few particular differences that ought to be taken into consideration aligning TMPs sequences, these techniques are therefore not optimal to align this special class of proteins. There is a small number of MSA methods applied specifically to TMPs. In this review, we have summarized the features, implementations and performance results of three MSA methods applied to TMPs: PRALINE™, ™-Coffee and TM-Aligner. These methods have illustrated impressive advances in the accuracy and computational efforts aligning TMPs sequences.

Original language	English
Title of host publication	Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers
Editors	Miguel Botto-Tobar, Mayra D’Armas, Miguel Zúñiga Sánchez, Miguel Zúñiga-Prieto, Guillermo Pizarro
Place of Publication	Cham
Publisher	Springer
Pages	410-419
Number of pages	10
ISBN (Print)	978-3-030-05531-8
DOIs	https://doi.org/10.1007/978-3-030-05532-5_30
Publication status	Published - 1 Jan 2019
Event	4th International Conference on Technology Trends, CITT 2018 - Babahoyo, Ecuador Duration: 29 Aug 2018 → 31 Aug 2018 Conference number: 4 http://citt.utb.edu.ec

Publication series

Name	Communications in Computer and Information Science
Volume	895
ISSN (Print)	1865-0929

Conference

Conference	4th International Conference on Technology Trends, CITT 2018
Abbreviated title	CITT 2018
Country/Territory	Ecuador
City	Babahoyo
Period	29/08/18 → 31/08/18
Internet address	http://citt.utb.edu.ec

Keywords

Computational bilogy
Multiple sequence alignment
Transmembrane proteins
Multiple Sequence Alignment

Access to Document

10.1007/978-3-030-05532-5_30

Cite this

Zambrano-Vega, C., Oviedo, B., Villamar-Torres, R., Botto-Tobar, M., & Barros-Rodríguez, M. (2019). An overview of multiple sequence alignment methods applied to transmembrane proteins. In M. Botto-Tobar, M. D’Armas, M. Zúñiga Sánchez, M. Zúñiga-Prieto, & G. Pizarro (Eds.), Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers (pp. 410-419). (Communications in Computer and Information Science; Vol. 895). Springer. https://doi.org/10.1007/978-3-030-05532-5_30

Zambrano-Vega, Cristian ; Oviedo, Byron ; Villamar-Torres, Ronald et al. / An overview of multiple sequence alignment methods applied to transmembrane proteins. Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers. editor / Miguel Botto-Tobar ; Mayra D’Armas ; Miguel Zúñiga Sánchez ; Miguel Zúñiga-Prieto ; Guillermo Pizarro. Cham : Springer, 2019. pp. 410-419 (Communications in Computer and Information Science).

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Zambrano-Vega, C, Oviedo, B, Villamar-Torres, R, Botto-Tobar, M & Barros-Rodríguez, M 2019, An overview of multiple sequence alignment methods applied to transmembrane proteins. in M Botto-Tobar, M D’Armas, M Zúñiga Sánchez, M Zúñiga-Prieto & G Pizarro (eds), Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers. Communications in Computer and Information Science, vol. 895, Springer, Cham, pp. 410-419, 4th International Conference on Technology Trends, CITT 2018, Babahoyo, Ecuador, 29/08/18. https://doi.org/10.1007/978-3-030-05532-5_30

An overview of multiple sequence alignment methods applied to transmembrane proteins. / Zambrano-Vega, Cristian; Oviedo, Byron; Villamar-Torres, Ronald et al.
Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers. ed. / Miguel Botto-Tobar; Mayra D’Armas; Miguel Zúñiga Sánchez; Miguel Zúñiga-Prieto; Guillermo Pizarro. Cham: Springer, 2019. p. 410-419 (Communications in Computer and Information Science; Vol. 895).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › Academic › peer-review

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AU - Oviedo, Byron

AU - Villamar-Torres, Ronald

AU - Botto-Tobar, Miguel

AU - Barros-Rodríguez, Marcos

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Zambrano-Vega C, Oviedo B, Villamar-Torres R, Botto-Tobar M, Barros-Rodríguez M. An overview of multiple sequence alignment methods applied to transmembrane proteins. In Botto-Tobar M, D’Armas M, Zúñiga Sánchez M, Zúñiga-Prieto M, Pizarro G, editors, Technology Trends - 4th International Conference, CITT 2018, Revised Selected Papers. Cham: Springer. 2019. p. 410-419. (Communications in Computer and Information Science). doi: 10.1007/978-3-030-05532-5_30

An overview of multiple sequence alignment methods applied to transmembrane proteins

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