|
| Status |
Public on Sep 20, 2024 |
| Title |
MVIR1-HS290-D9ETA1-MNGS1 |
| Sample type |
SRA |
| |
|
| Source name |
tracheal aspirate
|
| Organism |
Homo sapiens |
| Characteristics |
gender: Female
age: 82.5
race: Other/Multiple
ethnicity: Hispanic
2bp_status: No-BP
|
| Treatment protocol |
DNAse
|
| Growth protocol |
Clinical tracheal aspirate specimens
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Zymo DNA/RNA magbead
NEBnext with Qiagen Fastselect rRNA depletion
Random hexamer RNAseq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Alignment against human genome- kallisto
Differential expression with R package Limma
Assembly: HG-38, ENSEMBL v. 99
Supplementary files format and content: .csv file with genecounts
|
| |
|
| Submission date |
Nov 01, 2023 |
| Last update date |
Sep 20, 2024 |
| Contact name |
Charles Langelier |
| E-mail(s) |
chaz.langelier@ucsf.edu
|
| Organization name |
University of California San Francisco
|
| Department |
Medicine
|
| Lab |
Langelier Lab
|
| Street address |
HSE 401, 513 Parnassus Ave
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143-0654 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE246795 |
Microbial Dynamics and Pulmonary Immune Responses in COVID-19 Secondary Bacterial Pneumonia |
|
