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Related Experiment Videos

DNA sequence chromatogram browsing using JAVA and CORBA.

J D Parsons1, E Buehler, L Hillier

  • 1EMBL-Outstation-The European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. jparsons@ebi.ac.uk

Genome Research
|March 17, 1999
PubMed
Summary
This summary is machine-generated.

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This study introduces a client/server system for global access to DNA sequencing chromatograms (traces). The system addresses challenges in trace data accessibility for genomic and expressed sequence tag (EST) projects.

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • DNA sequencing chromatograms (traces) are crucial for genomic and expressed sequence tag (EST) projects.
  • Current methods for accessing and utilizing trace data are problematic due to centralization, file size, and local interactivity requirements.

Purpose of the Study:

  • To develop an efficient client/server system for global access to DNA sequencing traces.
  • To overcome limitations in trace data accessibility and usability for downstream analyses.

Main Methods:

  • Developed a client/server system using Java components.
  • Integrated the system into applications, including a WWW browser applet and a standalone trace viewer.
  • Utilized CORBA middleware for client/server interaction, providing a naming service and location independence.

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Main Results:

  • Created a system enabling efficient global access to DNA traces.
  • The system facilitates viewing and analysis of trace data through various interfaces.
  • Software is available as a Jar file with links to working examples and browsable EST traces.

Conclusions:

  • The developed system provides a solution for efficient global access to DNA sequencing traces.
  • This enhances the utility of trace data for large-scale genomic and EST projects.
  • The system improves accessibility for analyses like contig assembly and polymorphism detection.