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Journal Article

A high-resolution anatomical atlas of the transcriptome in the mouse embryo.

MPS-Authors
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Geffers,  L.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Martinez Hernandez,  A.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Herzog,  S.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Grabbe,  F.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Sieverding,  C.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Fischer,  B.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Schrader,  K.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

/persons/resource/persons31788

Brockmeyer,  M.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Helbig,  C.
Research Group of Circadian Rhythms, MPI for biochemical chemistry, Max Planck Society;

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Uhr,  M.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Kauck,  C.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

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Eichele,  G.
Department of Genes and Behavior, MPI for biophysical chemistry, Max Planck Society;

Fulltext (public)

1481366.pdf
(Publisher version), 4MB

1481366-Suppl-7.pdf
(Publisher version), 645KB

Supplementary Material (public)

1481366-Suppl-1.pdf
(Supplementary material), 68KB

1481366-Suppl-2.pdf
(Supplementary material), 33KB

1481366-Suppl-3.pdf
(Supplementary material), 2MB

1481366-Suppl-4.pdf
(Supplementary material), 3MB

1481366-Suppl-5.pdf
(Supplementary material), 2MB

1481366-Suppl-6.pdf
(Supplementary material), 214KB

1481366-Suppl-8.pdf
(Supplementary material), 2MB

1481366-Suppl-9.pdf
(Supplementary material), 222KB

1481366-Suppl-10.pdf
(Supplementary material), 206KB

1481366-Suppl-11.pdf
(Supplementary material), 102KB

1481366-Suppl-12.pdf
(Supplementary material), 93KB

1481366-Suppl-13.pdf
(Supplementary material), 299KB

1481366-Suppl-14.pdf
(Supplementary material), 305KB

1481366-Suppl-15.pdf
(Supplementary material), 75KB

1481366-Suppl-16.pdf
(Supplementary material), 92KB

1481366-Suppl-17.pdf
(Supplementary material), 4MB

1481366-Suppl-18.docx
(Supplementary material), 21KB

Citation

Diez-Roux, G., Banfi, S., Sultan, M., Geffers, L., Anand, S., Rozado, D., et al. (2011). A high-resolution anatomical atlas of the transcriptome in the mouse embryo. PLoS Biology, 9(1): e1000582. doi:10.1371/journal.pbio.1000582.


Cite as: http://hdl.handle.net/11858/00-001M-0000-000F-A607-6
Abstract
Ascertaining when and where genes are expressed is of crucial importance to understanding or predicting the physiological role of genes and proteins and how they interact to form the complex networks that underlie organ development and function. It is, therefore, crucial to determine on a genome-wide level, the spatio-temporal gene expression profiles at cellular resolution. This information is provided by colorimetric RNA in situ hybridization that can elucidate expression of genes in their native context and does so at cellular resolution. We generated what is to our knowledge the first genome-wide transcriptome atlas by RNA in situ hybridization of an entire mammalian organism, the developing mouse at embryonic day 14.5. This digital transcriptome atlas, the Eurexpress atlas (http://www.eurexpress.org), consists of a searchable database of annotated images that can be interactively viewed. We generated anatomy-based expression profiles for over 18,000 coding genes and over 400 microRNAs. We identified 1,002 tissue-specific genes that are a source of novel tissue-specific markers for 37 different anatomical structures. The quality and the resolution of the data revealed novel molecular domains for several developing structures, such as the telencephalon, a novel organization for the hypothalamus, and insight on the Wnt network involved in renal epithelial differentiation during kidney development. The digital transcriptome atlas is a powerful resource to determine co-expression of genes, to identify cell populations and lineages, and to identify functional associations between genes relevant to development and disease.