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OrthoInspector 3.0: open portal for comparative genomics.
Yannis Nevers1, Arnaud Kress1, Audrey Defosset1
1Department of Computer Science, ICube, UMR 7357, University of Strasbourg, CNRS, Fédération de Médecine Translationnelle de Strasbourg, Strasbourg, France.
Nucleic Acids Research
|November 1, 2018
Summary
OrthoInspector 3.0 now covers 4753 species, offering the most exhaustive orthology resource. It features new tools for comparative genomics and data visualization, enhancing evolutionary and functional analyses.
Area of Science:
- Bioinformatics
- Comparative Genomics
- Evolutionary Biology
Background:
- OrthoInspector is a key software suite for inferring orthology relationships.
- Previous versions provided valuable orthology data but required expansion in scope and features.
Purpose of the Study:
- To describe the major redesign of the OrthoInspector online resource.
- To significantly increase the number of species covered and introduce novel tools for data exploration and analysis.
Main Methods:
- Expanded the OrthoInspector database to include 4753 organisms across the three domains of life.
- Developed an ergonomic interface with data exploration and visualization tools, including heatmaps for protein ortholog distributions.
- Implemented novel comparative genomics tools: phylogenetic profile search and Gene Ontology (GO) profiling.
Main Results:
- OrthoInspector 3.0 is now the most exhaustive orthology resource by species count (excluding viruses).
- New visualization tools allow direct access to proteins with similar evolutionary profiles.
- Phylogenetic and GO profiling tools facilitate functional and evolutionary history investigations.
Conclusions:
- The redesigned OrthoInspector 3.0 offers unprecedented species coverage and advanced analytical capabilities.
- The resource supports comparative genomics and evolutionary studies through enhanced data exploration and novel tools.
- Programmatic access via a REST interface is now available, increasing the resource's utility for researchers.
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