EMAGE

EMAGE (e-Mouse Atlas of Gene Expression[note 1]) is

EMAGE
an online biological database of gene expression data in
the developing mouse (Mus musculus) embryo.[1][2][3]
The data held in EMAGE is spatially annotated to a
framework of 3D mouse embryo models produced by
EMAP (http://www.emouseatlas.org/emap/home.html)
(e-Mouse Atlas Project). These spatial annotations allow
users to query EMAGE by spatial pattern as well as by
gene name, anatomy term or Gene Ontology (GO) term. Content
EMAGE is a freely available web-based resource funded Description e-Mouse Atlas of Gene
by the Medical Research Council (UK) and based at the Expression
MRC Human Genetics Unit in the Institute of Genetics
Organisms mouse
and Molecular Medicine, Edinburgh, UK.
Contact

Contents Research center MRC Human Genetics

Unit
EMAGE contains in situ hybridisation, Primary citation PMID 19767607 (https://p
immunohistochemistry, and in situ reporter (e.g. knock-in ubmed.ncbi.nlm.nih.gov/1
and gene trap) data. It includes wholemount data, section 9767607)
data and full 3D OPT (Optical Projection Tomography)
Access
data. The gene expression patterns are mapped into or
onto the standard models by a team of biocurators, using Website emouseatlas.org/emage/
bespoke mapping software. In addition to the spatial (http://emouseatlas.org/e
annotations, EMAGE data is also text annotated to mage/)
provide a text based description of the expression
Miscellaneous
patterns. This text annotation is carried out in
collaboration with the MGI Gene Expression Database License Creative Commons
(GXD) (http://www.informatics.jax.org/mgihome/GXD/ Attribution License 3.0
aboutGXD.shtml) using the EMAP mouse anatomy
ontology.

EMAGE data comes primarily from peer reviewed, published journal articles, and from large scale screens,
but also from direct submissions from researches working in the field. Data does not need to be published
to be included in EMAGE, however EMAGE is a curated database. Biocurators check the accuracy of the
meta-data included in the database entries and as well as performing the spatial annotations of the data.
EMAGE entries are designed to adhere to the Minimum information specification for in situ hybridization
and immunohistochemistry experiments (MISFISHIE)[4] specifications, and as such contain information
about the submitter/author publication, detection reagent, assay specimen preparation, and experimental
procedures as well as the original data images and the spatial and text annotations. EMAGE entries also
contain links to a variety of related resources based on the either the gene being assayed, or the assay itself.

See also
Allen Brain Atlas

References
1. Richardson L, Venkataraman S, Stevenson P, et al. (January 2010). "EMAGE mouse
embryo spatial gene expression database: 2010 update" (https://www.ncbi.nlm.nih.gov/pmc/
articles/PMC2808994). Nucleic Acids Res. 38 (Database issue): D703–9.
doi:10.1093/nar/gkp763 (https://doi.org/10.1093%2Fnar%2Fgkp763). PMC 2808994 (https://
www.ncbi.nlm.nih.gov/pmc/articles/PMC2808994). PMID 19767607 (https://pubmed.ncbi.nl
m.nih.gov/19767607).
2. Venkataraman S, Stevenson P, Yang Y, et al. (January 2008). "EMAGE--Edinburgh Mouse
Atlas of Gene Expression: 2008 update" (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC223
8921). Nucleic Acids Res. 36 (Database issue): D860–5. doi:10.1093/nar/gkm938 (https://do
i.org/10.1093%2Fnar%2Fgkm938). PMC 2238921 (https://www.ncbi.nlm.nih.gov/pmc/article
s/PMC2238921). PMID 18077470 (https://pubmed.ncbi.nlm.nih.gov/18077470).
3. Christiansen JH, Yang Y, Venkataraman S, et al. (January 2006). "EMAGE: a spatial
database of gene expression patterns during mouse embryo development" (https://www.ncb
i.nlm.nih.gov/pmc/articles/PMC1347369). Nucleic Acids Res. 34 (Database issue): D637–
41. doi:10.1093/nar/gkj006 (https://doi.org/10.1093%2Fnar%2Fgkj006). PMC 1347369 (http
s://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347369). PMID 16381949 (https://pubmed.ncbi.
nlm.nih.gov/16381949).
4. Deutsch E W; et al. (March 2008). "Minimum information specification for in situ hybridization
and immunohistochemistry experiments (MISFISHIE)" (https://www.ncbi.nlm.nih.gov/pmc/arti
cles/PMC4367930). Nature Biotechnology. 26 (3): 305–312. doi:10.1038/nbt1391 (https://do
i.org/10.1038%2Fnbt1391). PMC 4367930 (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4
367930). PMID 18327244 (https://pubmed.ncbi.nlm.nih.gov/18327244).

Notes

1. Historically, EMAGE was an acronym for Edinburgh Mouse Atlas of Gene Expression.

External links
EMAGE resource home page (http://www.emouseatlas.org/emage/)

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