|
| Status |
Public on May 09, 2022 |
| Title |
liver YAP Tg rep 3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Liver
treatment: Doxycycline
genotype: YAP Tg
|
| Treatment protocol |
For Doxycycline treatment, 1-month-old mice or nursing mothers of newborn pups were fed with 50 mg/L Doxycycline (LKT Laboratories, Inc.) in drinking water for the indicated time. For decitabine administration, 1-month-old mice were kept on 50 mg/L Dox, injected intraperitoneally with 0.5 mg/kg decitabine (Cayman Chemical) daily for 10 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Liver total RNA was extracted using TRIzol Plus RNA Purification Kit (Invitrogen) and further cleaned up by TURBO DNA-free Kit (Ambion).
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
liver YAP Tg rep 3
YAP3
|
| Data processing |
Data was mapped to the mouse geneome using TopHat2 and the UCSC mm10 mouse genome as reference.
Count data were generated using featureCounts, and differential gene expression analysis was carried out by edgeR R package.
Genome_build: mm10
Supplementary_files_format_and_content: Normalized gene counts for every gene and every sample
|
| |
|
| Submission date |
Jun 15, 2021 |
| Last update date |
May 09, 2022 |
| Contact name |
Duojia Pan |
| E-mail(s) |
[email protected]
|
| Organization name |
UT Southwestern Medical Center
|
| Department |
Physiology
|
| Street address |
6001 Forest Park
|
| City |
Dallas |
| State/province |
Texas |
| ZIP/Postal code |
75235 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE178227 |
YAP induces an oncogenic transcriptional program through TET1-mediated epigenetic remodeling in liver growth and tumorigenesis |
|
| Relations |
| BioSample |
SAMN19712331 |
| SRA |
SRX11148827 |
