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Combo: a whole genome comparative browser.

Reinhard Engels1, Tamara Yu, Chris Burge

  • 1The Broad Institute of MIT and Harvard, 320 Charles Street, Cambridge, MA 02142, USA. reinhard@broad.mit.edu

Bioinformatics (Oxford, England)
|May 20, 2006
PubMed
Summary

Combo is a comparative genome browser offering dynamic whole genome alignment visualization. It provides two unique perspectives for exploring genomic data at any resolution, enhancing comparative genomics analysis.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Combo is integrated within the Argo Genome Browser, which offers single-genome browsing and editing.
  • The Argo Genome Browser is developed in Java, ensuring cross-platform compatibility.

Purpose of the Study:

  • To introduce Combo, a novel comparative genome browser.
  • To provide dynamic visualization of whole genome alignments and associated annotations.

Main Methods:

  • Combo offers two distinct visualization perspectives: perpendicular (dot plot) and parallel views.
  • Users can zoom from whole chromosomes to individual bases for detailed analysis.
  • The browser supports selection, highlighting, and detailed information retrieval for alignments and annotations.

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Main Results:

  • Combo enables dynamic visualization of whole genome alignments and annotations.
  • Two synchronized visualization perspectives (perpendicular and parallel) are provided.
  • The tool allows for detailed exploration of genomic data at various resolutions.

Conclusions:

  • Combo is an organism-agnostic comparative genome browser.
  • It facilitates dynamic visualization and detailed analysis of whole genome alignments and annotations.
  • The tool supports data import from various file formats, enhancing its utility.