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

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. Retrieved from http://www.ncbi.nlm.nih.gov/pubmed/21267068 http://www.plosbiology.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pbio.1000582&representation=PDF.

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Diez-Roux, G., Author
Banfi, S., Author
Sultan, M.1, Author           
Geffers, L., Author
Anand, S., Author
Rozado, D., Author
Magen, A., Author
Canidio, E., Author
Pagani, M., Author
Peluso, I., Author
Lin-Marq, N., Author
Koch, M., Author
Bilio, M., Author
Cantiello, I., Author
Verde, R., Author
De Masi, C., Author
Bianchi, S. A., Author
Cicchini, J., Author
Perroud, E., Author
Mehmeti, S., Author
Dagand, E.2, Author           Schrinner, S.1, Author           Nurnberger, A.2, Author           Schmidt, K., AuthorMetz, K., AuthorZwingmann, C., AuthorBrieske, N.3, Author           Springer, C., AuthorHernandez, A. M., AuthorHerzog, S., AuthorGrabbe, F., AuthorSieverding, C., AuthorFischer, B., AuthorSchrader, K., AuthorBrockmeyer, M., AuthorDettmer, S., AuthorHelbig, C., AuthorAlunni, V., AuthorBattaini, M. A., AuthorMura, C., AuthorHenrichsen, C. N., AuthorGarcia-Lopez, R., AuthorEchevarria, D., AuthorPuelles, E., AuthorGarcia-Calero, E., AuthorKruse, S., AuthorUhr, M., AuthorKauck, C., AuthorFeng, G., AuthorMilyaev, N., AuthorOng, C. K., AuthorKumar, L., AuthorLam, M., AuthorSemple, C. A., AuthorGyenesei, A., AuthorMundlos, S.3, Author           Radelof, U.2, Author           Lehrach, H.2, Author           Sarmientos, P., AuthorReymond, A., AuthorDavidson, D. R., AuthorDolle, P., AuthorAntonarakis, S. E., AuthorYaspo, M. L.1, Author           Martinez, S., AuthorBaldock, R. A., AuthorEichele, G., AuthorBallabio, A., Author more..
1Human Chromosome 21 (Marie-Laure Yaspo), Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1479652              
2Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              
3Research Group Development & Disease (Head: Stefan Mundlos), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433557              


Free keywords: Animals; Atlases as Topic; *Databases, Genetic; Embryo, Mammalian; *Gene Expression Profiling; Internet; Mice/*anatomy & histology/embryology/*genetics; Mice, Inbred C57BL; Organ Specificity
 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.


 Dates: 2011
 Publication Status: Published in print
 Pages: -
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Title: PLoS Biology
Source Genre: Journal
Publ. Info: -
Pages: - Volume / Issue: 9 (1) Sequence Number: - Start / End Page: e1000582 Identifier: ISSN: 1545-7885 (Electronic) 1544-9173 (Linking)