Cited by 531Developmental Biology and Gene RegulationGenomics and Chromatin DynamicsBioinformatics and Genomic Networks

GenePaint.org: an atlas of gene expression patterns in the mouse embryo

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Visel, A.·2004·Nucleic Acids Research

Abstract

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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  • The boundary between the 3V ChP and developing pineal gland was mapped using published ISH of marker genes from the data.

    “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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Authors
Visel, A.
Affiliations
Max Planck Society (DE)
Corresponding author
Visel, A.
Venue
Nucleic Acids Research
Published
2004-01-01
Volume
32
Issue
90001
Pages
552D-556
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
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
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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