 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jun 26, 2023 |
| Title |
The single-cell transcriptome and chromatin accessibility datasets of peripheral blood mononuclear cells in Chinese Holstein cattle |
| Organism |
Bos taurus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
This study is performed in the frame of a bigger study dedicated to the integrated analysis of the single-cell transcriptome and chromatin accessibility datasets of peripheral blood mononuclear cells (PBMCs) with a large-scale GWAS of 45 complex traits in Chinese Holstein cattle. In dairy cattle, lipopolysaccharide (LPS) is a crucial mediator of chronic inflammation to modulate immune responses. PBMCs include primary T and B cells, natural killer (NK) cells, monocytes (Mono), and dendritic cells (DC). It still remains unknown how LPS stimulated PBMCs at the single-cell level in dairy cattle. Therefore, the single-cell transcriptome and chromatin accessibility datasets in this study enable the further understanding and application of the cell types and functions of PBMCs and their responses to LPS stimulation in vitro in other studies.
|
| |
|
| Overall design |
Four whole blood samples were collected from four 2-year old Holstein female lactating cattle through the tail vein. Afterwards, they were mixed in one pool and evenly divided into four replicates. Four whole-blood treatments for each replicate included one control (no LPS) treatment and three case treatments (2 h, 4 h, and 8 h LPS), where 2 µg/ml LPS (Product Number: L2880, Sigma-Aldrich, Saint Louis, MO, USA) was used at 37 °C.
|
| Web link |
https://0-bmcgenomdata-biomedcentral-com.brum.beds.ac.uk/articles/10.1186/s12863-023-01139-0
|
| |
|
| Contributor(s) |
Wang X, Li J |
| Citation(s) |
37550629 |
| Submission date |
Feb 23, 2023 |
| Last update date |
Sep 25, 2023 |
| Contact name |
Xiao Wang |
| E-mail(s) |
xiao@kongelarsen.dk
|
| Organization name |
Konge Larsen Aps
|
| Street address |
Bagsværdvej 103, ST
|
| City |
Kongens Lyngby |
| ZIP/Postal code |
2800 |
| Country |
Denmark |
| |
|
| Platforms (1) |
| GPL26012 |
Illumina NovaSeq 6000 (Bos taurus) |
|
| Samples (8)
|
|
| Relations |
| BioProject |
PRJNA938112 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE225962_RAW.tar |
82.1 Mb |
(http)(custom) |
TAR (of TXT) |
| GSE225962_summary.xlsx |
3.6 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...