TopAnat: GO-like enrichment of anatomy from expression patterns

Bgee now provides a tool for doing enrichment of gene sets using anatomical expression annotated to Bgee
TopAnat: GO-like enrichment of anatomy from expression patterns image

TopAnat is a tool to identify and visualize enriched anatomical terms, from the expression patterns of a list of genes.

It allows to discover where genes from a set are preferentially expressed, as compared to a background, represented by default by all expression data in Bgee for the requested species. It is is similar to a Gene Ontology enrichment test, except that it analyzes the anatomical structures where genes are expressed, rather than their GO functional annotations.

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TopAnat uses the classical GO-enrichment approach, comparing terms associated to your gene list to those associated to a background list, and reports terms which are over-represented. The main differences with GO-enrichment are that:

  1. the ontology used is Uberon rather than GO.
  2. the association between genes and ontology terms is obtained from gene expression patterns from Bgee rather than GO functional annotations

Like for GO-enrichment, you can use a default background of all genes in your organism with expression data in Bgee, or you can upload your own background set.

November 25, 2015 |

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logo Uberon is an integrated cross-species ontology covering anatomical structures in animals. See the about page for more info.

github.com/obophenotype/uberon
 

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