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GenePaint.org: an atlas of gene expression patterns in the mouse embryo
Open accessAbstract
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 http://www.genepaint.org. 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 GenePaint.org and permits interactive zooming and panning across approximately 15,000 high-resolution images.
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“We leveraged the inclusion of adjacent brain tissue in our atlas to map the boundary between the 3V ChP and developing pineal gland using published ISH (Lein et al., 2007; Visel et al., 2004) of marker genes from our data (Figure S2C).”
From A cellular and spatial map of the choroid plexus across brain ventricles and ages (2021) · cites this paper as Visel et al., 2004
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Metadata
- Authors
- Visel, A.
- Affiliations
- Max Planck Society (DE)
- Corresponding author
- Visel, A.
- ORCID
- Visel, A.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2004-01-01
- Volume
- 32
- Issue
- 90001
- Pages
- 552D-556
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC308763
- OpenAlex
- W1985901090
- Cited by
- 528
- References
- 15
- Citations by year
- 2026: 13 · 2025: 17 · 2024: 26 · 2023: 25 · 2022: 15 · 2021: 25 · 2020: 23 · 2019: 27 · 2018: 16 · 2017: 16 · 2016: 28 · 2015: 27 · 2014: 25 · 2013: 38 · 2012: 21
- FWCI
- 3.57
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Nucleic Acids Research (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Max Planck Institute for Plasma Physics (submittedVersion)
- MPG.PuRe (Max Planck Society) (submittedVersion, other-oa)
- Funders
- European Commission
- Boehringer Ingelheim Fonds
- Max-Planck-Gesellschaft
- National Institute of Neurological Disorders and Stroke
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Keywords
- gene expression patterns, mouse embryo, E14.5, RNA in situ hybridization, relational databases, virtual microscope, gene expression atlas
- MeSH terms
- Animals, Brain, Embryo, Mammalian, RNA, Messenger, Software, RNA Probes, Information Storage and Retrieval, In Situ Hybridization, Gene Expression Regulation, Developmental, Computational Biology, Internet, Gene Expression Profiling, Databases, Genetic, Mice
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