Atlas or database | Description | Spatial scope | Developmental stages | URL, full project name, project leadership | Publication |
---|---|---|---|---|---|
C. elegans | |||||
Expression patterns for C. elegans promoter::GFP fusions | Database of expression patterns of transgenic animals with promoter::GFP fusions | body | embryo through adult | http://gfpweb.aecom.yu.edu/index A project of the British Columbia C. elegans Gene Expression Consortium | [69] |
WormBase (“WormMine” tool) | Community repository of molecular and genetic data from the literature, submissions, and collaborating projects | body | embryo through adult | An international consortium of researchers, based at Caltech (Pasadena, CA, USA) | [70] [46] |
Chicken | |||||
GEISHA | Community repository of in situ hybridization data acquired from high-throughput screens and the literature | body | egg through first six days of development | http://geisha.arizona.edu/geisha Gallus Expression in Situ Hybridization Analysis Hosted by Parker Antin’s group at the University of Arizona (Tuscaon, AZ, USA) | [71] [72] [73] |
Ciona intestinalis | |||||
ANISEED (“Gene Expression & Function” section) | Community repository of expression data from the literature, submissions, and collaborating projects | body | egg through adult | Ascidian Network for In Situ and Embryological Data A collaboration among ascidian researchers led by Patrick Lemaire at the CRM (Montpellier, France) | [47] [48] |
Drosophila | |||||
BDGP expression patterns | Database of in situ hybridization patterns | body | all embryonic stages | http://insitu.fruitfly.org/cgi-bin/ex/insitu.pl Berkeley Drosophila Genome Project From the laboratory of Susan Celniker at the Lawrence Berkeley Laboratory (Berkeley, CA, USA) | [74] [75] [76] |
FlyBase (“QuickSearch” tool) | Community repository of molecular and genetic data from the literature and direct submissions | body | egg through adult | From an international consortium of Drosophila researchers | [77] [78] [79] |
FlyExpress | A tool for searching expression patterns using images data from BDGP and Fly-FISH | body | all embryonic stages | From the laboratory of Sudhir Kumar at Arizona State University (Tempe, AZ, USA) | [40] [80] |
Fly-FISH | Database of in situ hybridization patterns | body | early embryonic stages and third instar larva | http://fly-fish.ccbr.utoronto.ca From the laboratory of Henry Krause at the University of Toronto (Toronto, Ontario, Canada) | [81] |
Medaka | |||||
MEPD | Database of expression patterns for genes (in situ hybridization) and regulatory sequences (fluorescent reporters) | body | egg through adult | http://mepd.cos.uni-heidelberg.de/mepd Medaka Expression Pattern Database A project within the Medaka Genome Initiative, from the laboratory of Joachin Wittbrody at University of Heidelberg Heidelberg, Germany) | [82] [83] [84] |
Mouse | |||||
Allen Developing Mouse Brain Atlas (“AGEA” section) | Atlas of spatially correlated expression patterns derived from in situ hybridizations on histological sections | brain | four embryonic stages (E11.5, 13.5, 15.5, 18.5), four post-natal stages (P4, 14, 28) | http://developingmouse.brain-map.org/agea/show Anatomic Gene Expression Atlas of the Allen Developing Mouse Brain Atlas Produced by the Allen Institute for Brain Sciences (Seattle, WA, USA) | [85] [86] [87] [36] |
EMBRYS | Database of in situ hybridization patterns, using whole mounts | body | three embryonic stages (E9.5, 10.5, 11.5) | http://embrys.jp/embrys/html/MainMenu.html Note: no longer available online From the laboratory of Hiroshi Asahara at the Systems BioMedicine Laboratory of the National Research Institute for Child Health and Development (Tokyo, Japan) | [88] [89] |
EMAGE | Community repository of molecular and genetic data from the literature and direct submissions | body | all post-implantation stages | http://www.emouseatlas.org/emage/home.php e-Mouse Atlas of Gene Expression Led by Duncan Davidson and Richard Baldock within the Medical Research Council Human Genetics Unit at the University of Edinburgh (Edinburgh, Scotland) | [56] [90] [91] [58] [92] [93] |
Eurexpress | Database of in situ hybridization patterns, using histoloogical sections | body | one embryonic stage (E14.5) | From a consortium of European researchers | [94] |
GXD | Community repository of expression data from the literature, direct submissions, and collaborating projects | body | all embryonic stages, postnatal | http://www.informatics.jax.org/gxd Mouse Gene Expression Database A Mouse Genome Informatics resource from Jackson Laboratory (Bar Harbor, ME, USA) | [95] [96] [97] [98] |
GENSAT | Database of in situ hybridization patterns and data from transgenic mice with EGFP reporter genes | nervous system | one embryonic stage (E15.5), postnatal (P7), adult | http://www.gensat.org/index.html Gene Expression Nervous System Atlas From the laboratory of Nathaniel Heinz at The Rockefeller University (New York, NY, USA) | [99] [100] |
GenePaint | Database of in situ hybridization patterns, using histological sections | body | three embryonic stages (E10.5, 14.5, 15.5), postnatal (P7), adult | Led by Gregor Eichele at the Max Planck Institute of Biophysical Chemistry (Göttingen, Germany) | [101] |
GUDMAP | Community repository of expression data from the GUDMAP consortium | urogenital system | mid-embryonic development through adult | GenitoUrinary Molecular Anatomy Project From an international consortium of researchers | [102] [103] [104] |
Xenopus | |||||
Xenbase | Community repository of expression data from the literature, submissions, and collaborating projects | body | all stages through adult | Led by Peter Vize at the University of Calgary (Calgary, Canada) | [105] [106] |
XenMARK expression patterns | Database of in situ hybridization patterns, using whole mounts | body | 32-cell stage through tadpole | http://genomics.crick.ac.uk/apps/XenMARK From the laboratory of Michael Gilchrist at the MRC National Institute for Medical Research (London, UK) | [38] |
Zebrafish | |||||
GEMS | Database of in situ hybridization patterns | body | gastrula through hatching | http://bio-imaging.liacs.nl/liacsgems.html Note: no longer available online Gene Expression Management System Produced by the Imagery & Media Group at Leiden University (Leiden, Netherlands) | [107] |
ZFIN | Community repository of molecular and genetic data from literature and direct submissions | body | zygote through adult | Zebrafish Model Organism Database (also known as the Zebrafish Information Network) Based at the University of Oregon (Eugene, OR, USA) | [108] [109] [110] |