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| Status |
Public on Feb 01, 2022 |
| Title |
Single-cell RNA analyses of cattle PBMC |
| Organism |
Bos taurus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Comprehensive analyses of tissues at the single-cell level will benefit our understanding of genetic bases for complex traits. We performed single-cell RNA sequencing (scRNA-seq) analyses of peripheral blood mononuclear cells (PBMCs) from Holstein cattle, investigating their cell types and responses to lipopolysaccharide (LPS) treatment in vitro. The responses to LPS treatment include innate immunity activation of monocytes, macrophages, and dendritic cells, as well as B cell proliferation. The innate immunity responses are featured with CCL2 and CXCL2 proinflammatory cytokines. We detected trait-relevant cell types and found that DEGs induced by LPS were significantly associated with many complex traits of economic value in Holstein.
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| Overall design |
Four samples from cattle PBMC
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| Contributor(s) |
Gao Y, Li J, Cai G, Wang Y, Yang W, Li Y, Zhao X, Li R, Gao Y, Baldwin VI RL, Li C, Fang L, Liu GE |
| Citation(s) |
35501711 |
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| Submission date |
Feb 05, 2021 |
| Last update date |
May 17, 2022 |
| Contact name |
Yahui Gao |
| E-mail(s) |
yahuigao306@gmail.com
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| Organization name |
ARS, USDA
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| Street address |
10300 Baltimore Ave Bldg 306
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| City |
Beltsville |
| State/province |
Maryland |
| ZIP/Postal code |
20705 |
| Country |
USA |
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| Platforms (1) |
| GPL26012 |
Illumina NovaSeq 6000 (Bos taurus) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA699770 |
| SRA |
SRP304880 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE166245_RAW.tar |
149.4 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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