|
| Status |
Public on May 24, 2022 |
| Title |
RNA_Rep3_shH2afy2 |
| Sample type |
SRA |
| |
|
| Source name |
mouse hippocampus area CA1
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J Male
mouse id: Mouse 16
condition: H2afy2 knockdown
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Brains were collected from home cage controls or from mice who underwent fear conditioning 1h before
RNA was extracted using Qiagen Rneasy mini kit
Library prep was conducted by Genome Quebec using NEBNext Ultra II library prep kit
NEB Next
adaptors were trimmed with Trim Galore (v0.4.5) running Cutadapt (v2.6)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
FastQ file-paired end
mH2A2_KD_RNA_seq_Raw_Counts.csv
|
| Data processing |
reads were aligned using STAR; featureCounts was used to get the read counts
Differential analysis was done using DEseq2 (v1.22.2)
Genome_build: UCSC mm10
|
| |
|
| Submission date |
Mar 24, 2020 |
| 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 |
SAMN14437748 |
| SRA |
SRX7980644 |
