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eProbalign: generation and manipulation of multiple sequence alignments using partition function posterior

Satish Chikkagoudar1, Usman Roshan, Dennis Livesay

  • 1Department of Computer Science, New Jersey Institute of Technology, University of North Carolina at Charlotte, USA.

Nucleic Acids Research
|May 9, 2007
PubMed
Summary
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eProbalign provides an online platform for multiple sequence alignment using partition function posterior probabilities. This web server offers advanced alignment analysis tools, enhancing biological sequence comparison.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Multiple sequence alignment (MSA) is crucial for understanding protein evolution and function.
  • Existing MSA methods often lack accuracy and user-friendly analysis tools.
  • Probalign has demonstrated high performance on benchmark datasets.

Purpose of the Study:

  • To introduce eProbalign, an online implementation of the Probalign algorithm.
  • To provide a web server for advanced post-alignment analysis.
  • To facilitate the manipulation and visualization of multiple sequence alignments.

Main Methods:

  • Utilized partition function posterior probabilities for maximal expected accuracy MSA.
  • Developed an online web server (eProbalign) for computational access.

Related Experiment Videos

  • Integrated the Probalign Alignment Viewer applet for interactive analysis.

    • Main Results:

    • eProbalign offers an accessible online platform for high-accuracy MSA.
    • The Probalign Alignment Viewer enables flexible manipulation and visualization of alignments.
    • The web server provides both graphical and text-based output formats.

    Conclusions:

    • eProbalign enhances the accessibility and utility of advanced MSA methods.
    • The integrated analysis tools facilitate deeper insights into sequence relationships.
    • The freely available web server and source code promote wider research application.