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Series GSE42881 Query DataSets for GSE42881
Status Public on Jan 29, 2013
Title A High-Resolution Enhancer Atlas of the Developing Telencephalon
Organisms Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The mammalian telencephalon plays critical roles in cognition, motor function, and emotion. While many of the genes required for its development have been identified, the distant‐acting regulatory sequences orchestrating their in vivo expression are mostly unknown. Here we describe a digital atlas of in vivo enhancers active in subregions of the developing telencephalon. We identified over 4,600 candidate embryonic forebrain enhancers and studied the in vivo activity of 329 of these sequences in transgenic mouse embryos. We generated serial sets of histological brain sections for 145 reproducible forebrain enhancers, resulting in a publicly accessible web‐based enhancer atlas comprising over 33,000 sections. We show how this large collection of annotated telencephalon enhancers can be used to study the regulatory architecture of individual genes, to examine the sequence motif content of enhancers, and to drive targeted reporter or effector protein expression in experimental applications. Furthermore, we used epigenomic analysis of human and mouse cortex tissue to directly compare the genome‐wide enhancer architecture in these species. This atlas provides a primary resource for investigating gene regulatory mechanisms of telencephalon development and enables studies of the role of distant‐acting enhancers in neurodevelopmental disorders.
Overall design Examination of p300 binding in mouse embryonic stage 11.5 forebrain, mouse postnatal (P0) cortex tissue and human fetal (gestational week 20) cortex
Contributor(s) Blow MJ, Visel A
Citation(s) 23375746
Submission date Dec 12, 2012
Last update date May 15, 2019
Contact name Matthew James Blow
Phone 510-486-6590
Fax 510-486-7004
Organization name Lawrence Berkeley National Laboratory
Department Genomics Division
Lab Rubin / Pennacchio
Street address 1 Cyclotron Road
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
Platforms (3)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (3)
GSM1052708 mouse_e11.5_forebrain_p300
GSM1052709 mouse_p0_cortex_p300
GSM1052710 human_fetal_cortex_p300
BioProject PRJNA183699
SRA SRP017527

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Supplementary file Size Download File type/resource
GSE42881_RAW.tar 508.8 Mb (http)(custom) TAR (of TXT, WIG)
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Raw data are available in SRA
Processed data provided as supplementary file

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