|
| Status |
Public on May 24, 2022 |
| Title |
ChIP_Untrained_1hr_Rep1_macroH2A1 |
| Sample type |
SRA |
| |
|
| Source name |
mouse hippocampus area CA1
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
Sex: Male
mouse id: Mouse 22
condition: Home cage control
antibody: macroH2A2 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 |
macroH2A2 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 |
SAMN16276648 |
| SRA |
SRX9199878 |
