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The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals.

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Summary

Bgee is a comprehensive database for comparing gene expression across 29 animal species using curated, healthy expression data. It offers tools for analyzing gene expression patterns and conditions, aiding biological research.

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Area of Science:

  • Bioinformatics
  • Comparative Genomics
  • Gene Expression Analysis

Background:

  • Gene expression patterns vary significantly across species and tissues.
  • Standardized databases are crucial for comparative analysis of gene expression.
  • Existing databases may lack comprehensive data or consistent annotation.

Purpose of the Study:

  • To present Bgee, a database integrating diverse gene expression data from multiple animal species.
  • To provide a standardized resource for comparing normal gene expression patterns.
  • To offer analytical tools for exploring gene expression across species.

Main Methods:

  • Integration of multiple gene expression data types (RNA-Seq, Affymetrix, in situ hybridization, EST).
  • Exclusive curation of healthy, wild-type expression data for consistency.
  • Standardized annotation and processing for cross-species comparability.
  • Development of tools for gene expression pattern comparison and enrichment analysis.

Main Results:

  • Bgee release 14.1 includes data from 29 animal species.
  • The database enables detection of gene expression conditions across various data types and species.
  • Tools facilitate automated within- and between-species expression comparisons.
  • Bgee provides gene expression scores and presence/absence calls.

Conclusions:

  • Bgee serves as a valuable, curated resource for comparative gene expression studies in animals.
  • The database and its associated tools facilitate robust analysis of normal gene expression.
  • Bgee supports research in evolutionary biology, developmental biology, and functional genomics.