|
| Status |
Public on Jun 05, 2022 |
| Title |
cD8 enriched splenocytes_s3ATAC |
| Sample type |
SRA |
| |
|
| Source name |
cD8 enriched splenocytes
|
| Organism |
Mus musculus |
| Characteristics |
treatment: multiplexed treated and untreated
strain: C57BL/6
disease: AML
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei were isolated and CD8 enriched
s3-ATAC-seq according to Mulqueen et. al. Nature Biotechnology 2021
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
Demultiplexing performed using unidex (https://github.com/adeylab/unidex)
Alignment to mm10 genome using bwa mem
Conversion to fragment files using sinto
Assembly: mm10
Supplementary files format and content: tsv files for frgaments and sample annotation and bam file for alignment
|
| |
|
| Submission date |
Jun 02, 2022 |
| Last update date |
Jun 05, 2022 |
| Contact name |
Andrew Adey |
| E-mail(s) |
adey@ohsu.edu
|
| Organization name |
Oregon Health & Science University
|
| Department |
MMG
|
| Lab |
Adey Lab
|
| Street address |
3181 S.W. Sam Jackson Park Rd, RHH, L103
|
| City |
Portland |
| State/province |
OR |
| ZIP/Postal code |
97239-3098 |
| Country |
USA |
| |
|
| Platform ID |
GPL30172 |
| Series (1) |
| GSE205368 |
s3-ATAC landscape of GEMM AML-derived CD8 T cells treated in vivo with JQ1 or vehicle |
|
| Relations |
| BioSample |
SAMN28837887 |
| SRA |
SRX15574522 |
