Experience using web services for biological sequence analysis

Heinz Stockinger; Teresa Attwood; Shahid Nadeem Chohan; Richard Côté; Philippe Cudré-Mauroux; Laurent Falquet; Pedro Fernandes; Robert D. Finn; Taavi Hupponen; Eija Korpelainen; Alberto Labarga; Aurelie Laugraud; Tania Lima; Evangelos Pafilis; Marco Pagni; Steve Pettifer; Isabelle Phan; Nazim Rahman

doi:10.1093/bib/bbn029

Experience using web services for biological sequence analysis

Heinz Stockinger, Teresa Attwood, Shahid Nadeem Chohan, Richard Côté, Philippe Cudré-Mauroux, Laurent Falquet, Pedro Fernandes, Robert D. Finn, Taavi Hupponen, Eija Korpelainen, Alberto Labarga, Aurelie Laugraud, Tania Lima, Evangelos Pafilis, Marco Pagni, Steve Pettifer, Isabelle Phan, Nazim Rahman

Research output: Contribution to journal › Article › peer-review

Abstract

Programmatic access to data and tools through the web using so-called web services has an important role to play in bioinformatics. In this article, we discuss the most popular approaches based on SOAP/WS-I and REST and describe our, a cross section of the community, experiences with providing and using web services in the context of biological sequence analysis. We briefly review main technological approaches as well as best practice hints that are useful for both users and developers. Finally, syntactic and semantic data integration issues with multiple web services are discussed. © The Author 2008. Published by Oxford University Press.

Original language	English
Pages (from-to)	493-505
Number of pages	12
Journal	Briefings in Bioinformatics
Volume	9
Issue number	6
DOIs	https://doi.org/10.1093/bib/bbn029
Publication status	Published - 2008

Keywords

Internet technologies
REST
Sequence analysis
SOAP
Web services

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Stockinger, H., Attwood, T., Chohan, S. N., Côté, R., Cudré-Mauroux, P., Falquet, L., Fernandes, P., Finn, R. D., Hupponen, T., Korpelainen, E., Labarga, A., Laugraud, A., Lima, T., Pafilis, E., Pagni, M., Pettifer, S., Phan, I., & Rahman, N. (2008). Experience using web services for biological sequence analysis. Briefings in Bioinformatics, 9(6), 493-505. https://doi.org/10.1093/bib/bbn029

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abstract = "Programmatic access to data and tools through the web using so-called web services has an important role to play in bioinformatics. In this article, we discuss the most popular approaches based on SOAP/WS-I and REST and describe our, a cross section of the community, experiences with providing and using web services in the context of biological sequence analysis. We briefly review main technological approaches as well as best practice hints that are useful for both users and developers. Finally, syntactic and semantic data integration issues with multiple web services are discussed. {\textcopyright} The Author 2008. Published by Oxford University Press.",

keywords = "Internet technologies, REST, Sequence analysis, SOAP, Web services",

author = "Heinz Stockinger and Teresa Attwood and Chohan, {Shahid Nadeem} and Richard C{\^o}t{\'e} and Philippe Cudr{\'e}-Mauroux and Laurent Falquet and Pedro Fernandes and Finn, {Robert D.} and Taavi Hupponen and Eija Korpelainen and Alberto Labarga and Aurelie Laugraud and Tania Lima and Evangelos Pafilis and Marco Pagni and Steve Pettifer and Isabelle Phan and Nazim Rahman",

year = "2008",

doi = "10.1093/bib/bbn029",

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Stockinger, H, Attwood, T, Chohan, SN, Côté, R, Cudré-Mauroux, P, Falquet, L, Fernandes, P, Finn, RD, Hupponen, T, Korpelainen, E, Labarga, A, Laugraud, A, Lima, T, Pafilis, E, Pagni, M, Pettifer, S, Phan, I & Rahman, N 2008, 'Experience using web services for biological sequence analysis', Briefings in Bioinformatics, vol. 9, no. 6, pp. 493-505. https://doi.org/10.1093/bib/bbn029

TY - JOUR

T1 - Experience using web services for biological sequence analysis

AU - Stockinger, Heinz

AU - Attwood, Teresa

AU - Chohan, Shahid Nadeem

AU - Côté, Richard

AU - Cudré-Mauroux, Philippe

AU - Falquet, Laurent

AU - Fernandes, Pedro

AU - Finn, Robert D.

AU - Hupponen, Taavi

AU - Korpelainen, Eija

AU - Labarga, Alberto

AU - Laugraud, Aurelie

AU - Lima, Tania

AU - Pafilis, Evangelos

AU - Pagni, Marco

AU - Pettifer, Steve

AU - Phan, Isabelle

AU - Rahman, Nazim

PY - 2008

Y1 - 2008

N2 - Programmatic access to data and tools through the web using so-called web services has an important role to play in bioinformatics. In this article, we discuss the most popular approaches based on SOAP/WS-I and REST and describe our, a cross section of the community, experiences with providing and using web services in the context of biological sequence analysis. We briefly review main technological approaches as well as best practice hints that are useful for both users and developers. Finally, syntactic and semantic data integration issues with multiple web services are discussed. © The Author 2008. Published by Oxford University Press.

AB - Programmatic access to data and tools through the web using so-called web services has an important role to play in bioinformatics. In this article, we discuss the most popular approaches based on SOAP/WS-I and REST and describe our, a cross section of the community, experiences with providing and using web services in the context of biological sequence analysis. We briefly review main technological approaches as well as best practice hints that are useful for both users and developers. Finally, syntactic and semantic data integration issues with multiple web services are discussed. © The Author 2008. Published by Oxford University Press.

KW - Internet technologies

KW - REST

KW - Sequence analysis

KW - SOAP

KW - Web services

U2 - 10.1093/bib/bbn029

DO - 10.1093/bib/bbn029

M3 - Article

SN - 1467-5463

VL - 9

SP - 493

EP - 505

JO - Briefings in Bioinformatics

JF - Briefings in Bioinformatics

IS - 6

ER -

Experience using web services for biological sequence analysis

Abstract

Keywords

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