|
| Status |
Public on Feb 13, 2023 |
| Title |
HhipCKO_3 |
| Sample type |
SRA |
| |
|
| Source name |
Lung mesenchyme
|
| Organism |
Mus musculus |
| Characteristics |
age: Adult
|
| Treatment protocol |
mice were Tamoxifen injected
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA was extracted by QIAGEN RNeasy Mini Kits from the cultured cells, and the amount and quality of extracted RNA was measured by RNA 6000 Pico Kit (Agilent). The Bulk RNA-seq was done in GENEWIZ.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
FASTQC for quality control, Cuadapt and Sickle for triming adaptors
reads were aligned and mapped using STAR
DESeq was use to call differential gene expression, in Rstudio
Assembly: UCSC Mouse (GRCm38/mm10)
|
| |
|
| Submission date |
Jul 25, 2022 |
| Last update date |
Feb 13, 2023 |
| Contact name |
Tien Peng |
| E-mail(s) |
[email protected]
|
| Organization name |
University of California San Francisco
|
| Department |
Department of Pulmonary Medicine
|
| Lab |
Tien Peng Lab
|
| Street address |
513 Parnassus Ave, Health Sciences East 1350
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE209734 |
Bulk RNAseq of the HhipCKO (UBCcreER/Myh11creER/Hhipflox/flox) and control (Hhipflox/flox) adult mouse mesenchymal cells |
|
| Relations |
| BioSample |
SAMN29948612 |
| SRA |
SRX18076572 |
