aequatus-vis is a plugin to visualise homologous genes through alignment and phylogeny information. It preserves interactive functionality of Aequatus Browser however enhanced usability and ability to integration with countless applications, like to visualise homologous genes fetched by Ensembl REST API, and likewise visualise homologous gene family discovered using Ensembl GeneFamily pipeline in Galaxy.
Source-code: https://github.com/TGAC/aequatus-vis
3. Homology and Phylogeny
■ Homology is existence of shared ancestry between a pair of structures, or genes, in
different species.
■ The phylogenetic information inferred from the study of homologous genes helps us
to understand the evolution of gene families,
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4. Aequatus
■ Aequatus is an open-source web based tool to visualise homologous genes with
phylogenetic tree.
■ Aequatus reads data directly from Ensembl Compara and Ensembl Core Databases
■ http://aequatus.tgac.ac.uk
■ GitHub: https://github.com/TGAC/Aequatus-Browser
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9. Reference information
Aequatus
@anilthanki
• Aequatus visualises similarity amongst homologous genes along with the
event type responsible for existence of the gene,
• for example speciation, duplication, gene-split etc.
• Also indicates insertions and deletions
• With user-friendly interactions and viewing options
monoamine oxidase
11. aequatus-vis
■ aequatus-vis is a JavaScript plugin to visualise homologous genes through alignment
and phylogeny information.
■ It preserves interactive functionality of Aequatus
■ It has an ability to integration with countless web based applications
@anilthanki
12. aequatus-vis
1. GeneTree
• JSON / Newick
2. Gene structural Info
• JSON
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JSON format returned from e! server
■ aequatus-vis takes gene tree and gene structural information as input
■ Gene tree in either Newick or JSON from e! server
■ Gene structures in JSON format from e! server
17. TGAC
Robert Davey
Sarah Ayling
Nicola Soranzo
http://aequatus.tgac.ac.uk
@anilthanki and @aequatus
Contact
Acknowledgements
@anilthanki
Javier Herrero
UCL Cancer Institute, UK
Matthieu Muffato
EBI-EMBL, UK