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Web services for DNA sequence analysis

Shestakov D, Salakoski T ...see all

Database and Expert Systems Applications, 2005. Proceedings. Sixteenth International Workshop on (2005) pp. 600-604

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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.

Author-supplied keywords

  • DNA
  • Internet
  • Web services
  • XML
  • XML databases
  • bioinformatics
  • biology computing
  • correspondence analysis
  • human computer interaction
  • nucleotide sequence analysis workflow
  • principal component analysis
  • program-friendly interface
  • query processing
  • query requests
  • statistical analysis
  • statistical analysis DNA sequence analysis tools

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Authors

  • D Shestakov

  • T Salakoski

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