|
| Status |
Public on Nov 10, 2023 |
| Title |
pdKO, dLN, rep2_atac |
| Sample type |
SRA |
| |
|
| Source name |
Lung draining lymph nodes
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Lung draining lymph nodes
replicate: Rep 2
flow markers: CD44+ CD4+ CD19- CD8- Rosa26-YFP+
cell type: Activated CD4+ T cells
genotype: Zfp148 fl/fl; Zfp281 fl/fl; Cd2-Cre+
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei were isolated following the recommended protocol from 10X Genomics, using a 3 minute lysis time.
Chromium NextGem Single Cell ATAC + Gene Expression
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic single cell |
| Library selection |
other |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
The standard 10x Genomics cellranger ARC (version 2.0.1) pipeline was used to perform data processing.
Sequenced reads were aligned to the 10x Genomics provided mouse reference sequence
Assembly: mm10
Supplementary files format and content: h5; Feature and barcode matrix
Supplementary files format and content: tsv; fragment file for ATAC fragments
Supplementary files format and content: csv; statistics
|
| |
|
| Submission date |
Mar 14, 2023 |
| Last update date |
Nov 10, 2023 |
| Contact name |
Remy Bosselut |
| E-mail(s) |
bosselur@helix.nih.gov
|
| Phone |
240-760-6866
|
| Organization name |
National Cancer Institute, National Institute of Health
|
| Department |
Laboratory of Immune Cell Biology
|
| Lab |
Bosselut
|
| Street address |
9000 Rockville Pike, Building 37
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL30172 |
| Series (2) |
| GSE207572 |
Zfp281 and Zfp148 control CD4+ T cell thymic development and Th2 functions |
| GSE227330 |
The transcription factor Zfp281 serves redundantly with Zfp148 to support CD4+ T cell development and functions [Papain multiome] |
|
| Relations |
| BioSample |
SAMN33761950 |
| SRA |
SRX19678958 |
