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Web Services for DNA Sequence Analysis

Denis Shestakov, Tapio Salakoski, Web Services for DNA Sequence Analysis. In: Proceedings of 16th International Conference and Workshop on Database and Expert Systems Applications (DEXA 2005), IEEE Computer Society, 2005.

Abstract:

The standardized interface to sequence analysis tools is
highly desirable to integrate bioinformatics applications.
Currently existing software packages and programming
toolkits (BioPerl, BioJava, etc.) used by bioinformaticians
for DNA sequence analysis have limited support for exchanging
and reusing data. To solve these issues, we propose the web
services approach and discuss how to apply the web services
technology for nucleotide sequence analysis workflow.
In this work, we present a program-friendly interface to
DNA sequence analysis tools using web services. All data
including query requests to the web services are managed in
XML-formats. The web services responsible for statistical
analysis provide an interface to the R statistical environment
and can perform analysis using several statistical methods
(including correspondence analysis and principal component
analysis). Output of the web services is in XML-format and,
thus, can be stored in local XML databases.

BibTeX entry:

@INPROCEEDINGS{inpShSa05a,
  title = {Web Services for DNA Sequence Analysis},
  booktitle = {Proceedings of 16th International Conference and Workshop on Database and Expert Systems Applications (DEXA 2005)},
  author = {Shestakov, Denis and Salakoski, Tapio},
  publisher = {IEEE Computer Society},
  year = {2005},
  keywords = {codon usage analysis, codon usage data, web services, nucleotide sequence analysis workflow},
}

Belongs to TUCS Research Unit(s): Turku BioNLP Group

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