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Series GSE84174 Query DataSets for GSE84174
Status Public on Nov 22, 2016
Title ChIP-seq of CTCF from mouse hippocampus
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary CTCF is an organizer of higher-order chromatin structure, and regulates gene expression. Genetic studies have implicated mutations in CTCF in intellectual disabilities. However, there is no knowledge of the role of CTCF-mediated chromatin structure in learning and memory. We show that depletion of CTCF in postmitotic neurons, or depletion in the hippocampus of adult mice through viral-mediated knockout, induces deficits in learning and memory. These deficits in learning and memory at the beginning of adulthood are correlated with impaired long term potentiation and reduced spine density, with no changes in basal synaptic transmission and dendritic morphogenesis and arborization. Cognitive disabilities are associated with downregulation of cadherin and learning-related genes. In addition, CTCF knockdown attenuates fear conditioning-induced hippocampal gene expression of key learning genes and loss of long-range interactions at the BDNF and Arc loci. This study identifies CTCF-dependent gene expression regulation and DNA structure as regulators of learning and memory.
 
Overall design 2 biological replicates of mice and one input sample
 
Contributor(s) Evan E, Sams DS
Citation(s) 27880914
Submission date Jul 08, 2016
Last update date May 15, 2019
Contact name Gilgi Friedlander
Organization name Weizmann Institute of Science
Street address Hertzel st
City Rehovot
ZIP/Postal code 76100
Country Israel
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (4)
GSM2228526 ChIP repeat one
GSM2228527 ChIP repeat two
GSM2228528 input repeat one
This SubSeries is part of SuperSeries:
GSE84176 CTCF ChIP-seq of WT and RNA-seq of WT and CTCF cko mouse
Relations
BioProject PRJNA328227
SRA SRP078143

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE84174_macs2_CHIP12-INP_12_peaks.bed.gz 197.7 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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