|
| Status |
Public on Jan 14, 2025 |
| Title |
zmlx181_Eosinophil deficient |
| Sample type |
SRA |
| |
|
| Source name |
lung
|
| Organism |
Mus musculus |
| Characteristics |
tissue: lung
strain: C57BL/6iPHIL (eosinophil DTR mice)
genotype: Iphil
Sex: male
treatment: saline
|
| Treatment protocol |
We transplanted Balb/c left lung to C57BL/6iPHIL recipient with co-stimulatory blockade, then administrate either Diphtheria Toxin or Saline since 30days post-engraftment. Harvest the lung allografts after 3-4 weeks eosinophil depletion period.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Lung tissue was minced and digested by IMDM medium containing collagenase II and DNAse for 35 minutes at 37°C in a shaker. The digested lung tissue was passed through a 70-μm cell strainer and treated with ACK lysing buffer to remove red cell contamination.
Library was performed according to the manufacter’s instructions (Single Cell 3' v3, 10X Genomics)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
10x Genomics
|
| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v. 3.1.0 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Bbrowser (3.5.26) for quality filtering, dimensionality reduction (tsne), analysis of features
Seurat (4.3.0) - visualization of feature and comparative analysis
Assembly: mm10-2.1.0
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Jan 19, 2023 |
| Last update date |
Jan 14, 2025 |
| Contact name |
JP Courneya |
| Organization name |
University of Maryland, Baltimore
|
| Street address |
685 W Baltimore St., HSF2 Room 480
|
| City |
Baltimore |
| State/province |
United States of America |
| ZIP/Postal code |
21201 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE223268 |
Eosinophils Restrain Humoral Alloimmunity after Lung Transplantation [scRNA-seq] |
| GSE223907 |
Eosinophils Restrain Humoral Alloimmunity after Lung Transplantation |
|
| Relations |
| BioSample |
SAMN32800159 |
| SRA |
SRX19081296 |
