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Sample GSM4804602 Query DataSets for GSM4804602
Status Public on May 24, 2022
Title ChIP_Fear_conditioned_1hr_Rep1_macroH2A1
Sample type SRA
 
Source name mouse hippocampus area CA1
Organism Mus musculus
Characteristics strain: C57BL/6J
Sex: Male
mouse id: Mouse 20
condition: 1 hour after fear conditioning
antibody: macroH2A1 ChIP
Extracted molecule genomic DNA
Extraction protocol Brains were collected from home cage controls or from mice who underwent fear conditioning 30 min before ChIP was conducted on Mnase digested tissue from area CA1 with antibodies against macroH2A1 (abcam cag#37264) or macroH2A2 (Abcam cat#3173) Library prep was conducted by Genome Quebec using NEBNext Ultra II library prep kit Adapters: IlluminaTruSeq LT
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 4000
 
Description macroH2A1 ChIP
Data processing Brains were collected from home cage controls or from mice who underwent fear conditioning 1 hour and 6 hour before
ChIP was conducted on Mnase digested tissue from area CA1 with antibodies against macroH2A1 (abcam cag#37264 for 30 min ChIP and ; Thermo Fisher cat# Ma5-24696 for 1h and 6h ChIP) or macroH2A2 (Abcam cat#3173)
Library prep was conducted by Genome Quebec using NEBNext Ultra II library prep kit
Adapters: IlluminaTruSeq LT
Reads were aligned using Bowtie 2.
Peaks were identified using epic2
Differential analysis for macroH2A1 and macroH2A2 binding was assessed with DiffBind (v.2.10.0)
Genome_build: UCSC mm10
Supplementary_files_format_and_content: bed
 
Submission date Mar 23, 2022
Last update date May 24, 2022
Contact name Iva Toronto Zovkic
E-mail(s) iva.zovkic@utoronto.ca
Phone 9058283961
Organization name University of Toronto Mississauga
Street address 3359 Mississauga Road North, CCT Building Room 4071
City Mississauga
State/province Ontario
ZIP/Postal code L5L1C6
Country Canada
 
Platform ID GPL21103
Series (1)
GSE147445 Histone variant macroH2A1 is a stronger regulator of hippocampal transcription and memory than macroH2A2 in mice
Relations
BioSample SAMN16276652
SRA SRX9199874

Supplementary file Size Download File type/resource
GSM4804602_M1_CS11.bed.gz 3.4 Mb (ftp)(http) BED
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA
Processed data are available on Series record

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