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Series GSE84643 Query DataSets for GSE84643
Status Public on Feb 22, 2018
Title Activity-Dependent Regulation of Alternative Cleavage and Polyadenylation (APA) during hippocampal Long-Term Potentiation (LTP) [3'READS]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary This study was aimed at elucidating the mechanisms underlying activity-dependent gene regulation during LTP of mouse hippocampal CA3-CA1 synapses. Deep sequencing of the 3’ end of transcripts allowed to identify changes in APA induced 1 hour and 3 hours after LTP induction. We detected APA changes that only affected the 3'UTR (3'UTR-APA events) and APA changes that also affected the coding sequence (CDS-APA events).
Overall design We performed 3’ region extraction and deep sequencing (3'READS) of acute hippocampal slices 1 hour and 3 hours after LTP induction, and of time-matched control slices. Hippocampal slices were prepared from 2-3 month old C57BL/6 wild-type mice, the dentate gyrus was trimmed, and the slices were placed in interface chambers to recover for 2 hours with continuous ACSF perfusion. From the same animal, half of the mini-slices were used for LTP induction (using a pharmacological protocol, cLTP) and the remaining slices were treated with a DMSO vehicle solution as controls. We sequenced triplicates (samples 1-3) of controls and cLTP treated slices for the 1 hour and 3 hours time-point.
Contributor(s) Fontes M, Guvenek A, Kawaguchi R, Zheng D, Huang A, Ho VM, Chen PB, Liu X, O’Dell TJ, Coppola G, Tian B, Martin KC
Citation(s) 29234016
Submission date Jul 20, 2016
Last update date May 15, 2019
Contact name Riki Kawaguchi
Phone 4244424783
Organization name University of California Los Angeles
Department Department of Neurology and Department of Psychiatry
Lab Informatics Center for Neurogenetics and Neurogenomics (ICNN).
Street address 760 Westwood Plaza, Room 37-420
City Los Angeles
State/province CA
ZIP/Postal code 90095-1759
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (12)
This SubSeries is part of SuperSeries:
GSE84644 Activity-Dependent Regulation of Alternative Cleavage and Polyadenylation (APA) During Hippocampal Long-Term Potentiation (LTP)
BioProject PRJNA330722
SRA SRP079009

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE84643_3READS_count_table.txt.gz 1.2 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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