|
Status |
Public on Nov 10, 2023 |
Title |
pdKO, dLN, rep1_atac |
Sample type |
SRA |
|
|
Source name |
Lung draining lymph nodes
|
Organism |
Mus musculus |
Characteristics |
tissue: Lung draining lymph nodes replicate: Rep 1 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 |
SAMN33761954 |
SRA |
SRX19678954 |