|
| Status |
Public on Aug 31, 2021 |
| Title |
Utx_KO_H3K27me3 |
| Sample type |
SRA |
| |
|
| Source name |
Utx_KO_Splenic CD8 T cell
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype/variation: Utx KO
tissue: spleen
cell type: Naive CD8 T (CD44lowCD62Lhigh) cells
chip antibody: H3K27me3 (abcam, ab6002, lot 205847)
|
| Growth protocol |
Naïve CD8 T (CD44lowCD62Lhigh) cells were prepared from spleens of WT or Utx KO mice. Naïve CD8 T cells were stimulated with an immobilized anti-TCR-β mAb (3 μg/ml, H57-597; BioLegend) and an anti-CD28 mAb (1 μg/ml, 37.5; BioLegend), and IL-2 (10 ng/ml, Cat.21-8021:Tonbo biosciences) for two days.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
Libraries were prepared according to NEB's instructions accompanying the NEBNext ChIP-Seq Library prep Master Mix Set for Illumina (E6240)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Illumina Casava1.8.2 software used for basecalling.
ChIP-seq reads were aligned to the mm9 genome assembly using bowtie (Galaxy Tool Version 1.1.2)
peaks were called using MACS (Galaxy Tool Version 1.0.1)
All ChIP-seq analysis was performed on Galaxy web site
Genome_build: mm9
Supplementary_files_format_and_content: wig
|
| |
|
| Submission date |
Aug 31, 2018 |
| Last update date |
Aug 31, 2021 |
| Contact name |
Junpei Suzuki |
| Organization name |
Ehime University
|
| Department |
Graduate School of Medicine
|
| Lab |
Immunology
|
| Street address |
Shitukawa
|
| City |
Toon |
| ZIP/Postal code |
791-0295 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE119312 |
Histone H3K27 demethylase negatively controls the memory formation of Ag-stimulated CD8+ T cells |
|
| Relations |
| BioSample |
SAMN09940804 |
| SRA |
SRX4628612 |
