Development of a workflow for protein sequence analysis based on the taverna workbench® software

Mariana B. Monteiro; Manuela E. Pintado; Francisco X. Malcata; Conrad Bessant; Patrícia R. Moreira

doi:10.1007/978-3-642-02481-8_169

Development of a workflow for protein sequence analysis based on the taverna workbench® software

Mariana B. Monteiro, Manuela E. Pintado, Francisco X. Malcata, Conrad Bessant, Patrícia R. Moreira

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

Abstract

A workflow based on the Taverna Workbench® software and tentatively named WPSA was developed to perform a generic protein sequence analysis eliminating the need to cut and paste data throughout web applications. The program performs a homology search, a multiple sequence alignment and a phylogeny analysis using PHYLogeny Interface Package (PHYLIP). The workflow designed gives a fast and significant answer to the user about the input sequence entered taking between 5 to 10 minutes to run depending on the Internet connection and web services.

Original language	English
Title of host publication	Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living
Subtitle of host publication	10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops
Pages	1118-1124
Number of pages	7
Volume	5518
Edition	PART 2
DOIs	https://doi.org/10.1007/978-3-642-02481-8_169 https://doi.org/10.1007/978-3-642-02481-8_169
Publication status	Published - Jun 2009
Event	10th International Work-Conference on Artificial Neural Networks - Salamanca, Spain Duration: 10 Jun 2009 → 12 Jun 2009

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Number	PART 2
Volume	5518 LNCS
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Conference

Conference	10th International Work-Conference on Artificial Neural Networks
Abbreviated title	IWANN 2009
Country/Territory	Spain
City	Salamanca
Period	10/06/09 → 12/06/09

Keywords

Protein sequence analysis
Taverna workbench®
Web services
Workflow

Access to Document

http://hdl.handle.net/10400.14/5443

Cite this

Monteiro, M. B., Pintado, M. E., Malcata, F. X., Bessant, C., & Moreira, P. R. (2009). Development of a workflow for protein sequence analysis based on the taverna workbench® software. In Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living: 10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops (PART 2 ed., Vol. 5518, pp. 1118-1124). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5518 LNCS, No. PART 2). https://doi.org/10.1007/978-3-642-02481-8_169, https://doi.org/10.1007/978-3-642-02481-8_169

Monteiro, Mariana B. ; Pintado, Manuela E. ; Malcata, Francisco X. et al. / Development of a workflow for protein sequence analysis based on the taverna workbench® software. Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living: 10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops. Vol. 5518 PART 2. ed. 2009. pp. 1118-1124 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); PART 2).

@inproceedings{ba69c1f382c3461e9a83e9c5a596ace3,

title = "Development of a workflow for protein sequence analysis based on the taverna workbench{\textregistered} software",

abstract = "A workflow based on the Taverna Workbench{\textregistered} software and tentatively named WPSA was developed to perform a generic protein sequence analysis eliminating the need to cut and paste data throughout web applications. The program performs a homology search, a multiple sequence alignment and a phylogeny analysis using PHYLogeny Interface Package (PHYLIP). The workflow designed gives a fast and significant answer to the user about the input sequence entered taking between 5 to 10 minutes to run depending on the Internet connection and web services.",

keywords = "Protein sequence analysis, Taverna workbench{\textregistered}, Web services, Workflow",

author = "Monteiro, {Mariana B.} and Pintado, {Manuela E.} and Malcata, {Francisco X.} and Conrad Bessant and Moreira, {Patr{\'i}cia R.}",

year = "2009",

month = jun,

doi = "10.1007/978-3-642-02481-8_169",

language = "English",

isbn = "3642024807",

volume = "5518",

series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",

number = "PART 2",

pages = "1118--1124",

booktitle = "Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living",

edition = "PART 2",

note = "10th International Work-Conference on Artificial Neural Networks, IWANN 2009 ; Conference date: 10-06-2009 Through 12-06-2009",

}

Monteiro, MB, Pintado, ME, Malcata, FX, Bessant, C & Moreira, PR 2009, Development of a workflow for protein sequence analysis based on the taverna workbench® software. in Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living: 10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops. PART 2 edn, vol. 5518, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), no. PART 2, vol. 5518 LNCS, pp. 1118-1124, 10th International Work-Conference on Artificial Neural Networks, Salamanca, Spain, 10/06/09. https://doi.org/10.1007/978-3-642-02481-8_169, https://doi.org/10.1007/978-3-642-02481-8_169

Development of a workflow for protein sequence analysis based on the taverna workbench® software. / Monteiro, Mariana B.; Pintado, Manuela E.; Malcata, Francisco X. et al.
Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living: 10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops. Vol. 5518 PART 2. ed. 2009. p. 1118-1124 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5518 LNCS, No. PART 2).

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

TY - GEN

T1 - Development of a workflow for protein sequence analysis based on the taverna workbench® software

AU - Monteiro, Mariana B.

AU - Pintado, Manuela E.

AU - Malcata, Francisco X.

AU - Bessant, Conrad

AU - Moreira, Patrícia R.

PY - 2009/6

Y1 - 2009/6

N2 - A workflow based on the Taverna Workbench® software and tentatively named WPSA was developed to perform a generic protein sequence analysis eliminating the need to cut and paste data throughout web applications. The program performs a homology search, a multiple sequence alignment and a phylogeny analysis using PHYLogeny Interface Package (PHYLIP). The workflow designed gives a fast and significant answer to the user about the input sequence entered taking between 5 to 10 minutes to run depending on the Internet connection and web services.

AB - A workflow based on the Taverna Workbench® software and tentatively named WPSA was developed to perform a generic protein sequence analysis eliminating the need to cut and paste data throughout web applications. The program performs a homology search, a multiple sequence alignment and a phylogeny analysis using PHYLogeny Interface Package (PHYLIP). The workflow designed gives a fast and significant answer to the user about the input sequence entered taking between 5 to 10 minutes to run depending on the Internet connection and web services.

KW - Protein sequence analysis

KW - Taverna workbench®

KW - Web services

KW - Workflow

UR - http://www.scopus.com/inward/record.url?scp=77952557525&partnerID=8YFLogxK

U2 - 10.1007/978-3-642-02481-8_169

DO - 10.1007/978-3-642-02481-8_169

M3 - Conference contribution

AN - SCOPUS:77952557525

SN - 3642024807

SN - 9783642024801

VL - 5518

T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

SP - 1118

EP - 1124

BT - Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living

T2 - 10th International Work-Conference on Artificial Neural Networks

Y2 - 10 June 2009 through 12 June 2009

ER -

Monteiro MB, Pintado ME, Malcata FX, Bessant C, Moreira PR. Development of a workflow for protein sequence analysis based on the taverna workbench® software. In Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, Ambient Assisted Living: 10th International Work-Conference Artificial Neural Networks, IWANN 2009 Workshops. PART 2 ed. Vol. 5518. 2009. p. 1118-1124. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); PART 2). doi: 10.1007/978-3-642-02481-8_169, 10.1007/978-3-642-02481-8_169

Development of a workflow for protein sequence analysis based on the taverna workbench® software

Abstract

Publication series

Conference

Keywords

Access to Document

Other files and links

Fingerprint

Cite this