an atlas of gene expression patterns in the mouse embryo

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D552-6. doi: 10.1093/nar/gkh029.


High-throughput instruments were recently developed to determine gene expression patterns on tissue sections by RNA in situ hybridization. The resulting images of gene expression patterns, chiefly of E14.5 mouse embryos, are accessible to the public at This relational database is searchable for gene identifiers and RNA probe sequences. Moreover, patterns and intensity of expression in approximately 100 different embryonic tissues are annotated and can be searched using a standardized catalog of anatomical structures. A virtual microscope tool, the Zoom Image Server, was implemented in and permits interactive zooming and panning across approximately 15,000 high-resolution images.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Animals
  • Brain / metabolism
  • Computational Biology
  • Databases, Genetic*
  • Embryo, Mammalian / metabolism*
  • Gene Expression Profiling*
  • Gene Expression Regulation, Developmental*
  • In Situ Hybridization*
  • Information Storage and Retrieval
  • Internet
  • Mice / embryology*
  • Mice / genetics*
  • RNA Probes / genetics
  • RNA, Messenger / analysis
  • RNA, Messenger / genetics
  • Software


  • RNA Probes
  • RNA, Messenger