eMouseAtlas: An atlas-based resource for understanding mammalian embryogenesis

Area of Science:

• Developmental Biology
• Bioinformatics
• Genomics

Background:

• The eMouseAtlas is a comprehensive online resource for mouse development.
• It integrates 3D anatomical models, an anatomical ontology, and gene expression data.
• It is linked to the MGI/GXD database, providing access to extensive mouse embryo gene expression data.

Purpose of the Study:

• To describe novel web-based tools for 3D visualization of mouse embryo anatomy and gene expression.
• To present a framework for capturing and understanding gene expression patterns using spatial models.
• To review exploratory tools for defining co-expression patterns within the EMAGE database.

Main Methods:

• Development of novel web-based 3D visualization tools.
• Mapping of gene expression data onto spatial anatomical models.
• Utilizing exploratory tools within the EMAGE database for co-expression analysis.

Main Results:

• Enhanced 3D visualization of mouse embryo anatomy and gene expression.
• A framework for capturing gene expression data that improves developmental understanding.
• Review of tools for defining co-expression patterns from various data types (in situ hybridization, immunohistochemistry, lacZ-omics).

Conclusions:

• The eMouseAtlas resource and its associated tools significantly enhance the study of mouse development.
• Spatial mapping of gene expression data provides a powerful framework for understanding developmental processes.
• Ongoing developments, including a placental atlas and eLearning resources, will further enrich the resource.