|
| Status |
Public on Apr 03, 2022 |
| Title |
cy1l |
| Sample type |
SRA |
| |
|
| Source name |
BAL AM (CD45+ Ly6G-SIglecF + CD11c+)
|
| Organism |
Mus musculus |
| Characteristics |
age: 4wks
genotype: CGD/CYBB KO (C57BL/6)
cell type: Pooled BAL cells
group: CD45+ Ly6G-SIglecF + CD11c+ CD11blow
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNAeasy micro plus
Clontech SMRTr
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
CGD 4wks CD11blow
Naive
CGD_4W_CD11blow AM
|
| Data processing |
The resulting sequencing reads were demultiplexed by index with a custom Python demultiplexing script and further demultiplexed by barcode with a custom Perl demultiplexing script.
The RNA-Seq reads were then aligned to the Mus musculus Ensembl release 76 top-level assembly with STAR
Gene counts were derived from the number of uniquely aligned unambiguous reads by Subread:featureCount.
Sailfish was used to produce isoform estimated counts.
Assembly: Mus musculus Ensemble R76
Supplementary files format and content: Tab-delimited text files include read count values for each Sample
|
| |
|
| Submission date |
Mar 16, 2022 |
| Last update date |
Apr 03, 2022 |
| Contact name |
Mary C Dinauer |
| E-mail(s) |
mdinauer@wustl.edu
|
| Organization name |
Washington University In St Louis
|
| Department |
Pathology & Immunology
|
| Street address |
660 South Euclid Ave
|
| City |
St Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (2) |
| GSE198769 |
Bronchoalveolar lavage alveolar macrophage subset transcriptomes in WT and NOX2-knockout mice |
| GSE198778 |
The leukocyte NADPH oxidase 2 (NOX2) plays a key role in pathogen killing and immunoregulation |
|
| Relations |
| BioSample |
SAMN26724464 |
| SRA |
SRX14474398 |
