|
| Status |
Public on Jun 12, 2023 |
| Title |
Bronchoalveolar air [Collection_E7] |
| Sample type |
SRA |
| |
|
| Source name |
Bronchoalveolar air
|
| Organism |
Mus musculus |
| Characteristics |
strain: BALB/c
Sex: female
age: 7-8 weeks
cell type: Live bronchoalveolar cells from air-exposed mice
|
| Treatment protocol |
Mice were exposed to normal air or cigarette smoke through custom-designed and purpose-built nose-only exposure system. The smoke of up to twelve 3R4F reference cigarettes was administered twice per day, 5 days a week for 3 months.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Single cell suspensions were stained with anti-mouse CD45 antibody and/or DAPI dye (live/dead exclusion), filtered with 70 um filters and sorted
10X Genomics Chromium Next GEM Single Cell 3' Kit v3.1
10X Genomics Library Construction Kit
NovaSeq600 system: 28 bp (Read 1), 91 bp (Read 2) and 8 bp index read
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Single-cell data were demultiplexed using bcl2fastq v2.19.0.316.
cellranger -v (3.1.0)
Normalization using Seurat
Assembly: GRCm38
Supplementary files format and content: raw seurat input matrices
|
| |
|
| Submission date |
May 30, 2022 |
| Last update date |
Jun 12, 2023 |
| Contact name |
Joachim Schultze |
| E-mail(s) |
j.schultze@uni-bonn.de
|
| Organization name |
LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
|
| Department |
Genomics and Immunoregulation
|
| Street address |
Carl-Troll-Strasse 31
|
| City |
Bonn |
| State/province |
NRW |
| ZIP/Postal code |
53115 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE205078 |
Inflammatory blood neutrophils in COPD are derived from activated bone marrow progenitors |
|
| Relations |
| BioSample |
SAMN28766889 |
| SRA |
SRX15499575 |
