|
| Status |
Public on Oct 29, 2022 |
| Title |
Cre positive, MI surgery rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Cre positive_MI surgery
|
| Organism |
Mus musculus |
| Characteristics |
parental lines: Jackson Laboratory stocks 027929 and 029645
genotype/variation: Cre Positive
age: 6 to 10 weeks
injury type: Left anterior artery ligation
time point: 4 days post injury
tissue: Left Ventricle
|
| Treatment protocol |
Permenant ligation of the left anterior descending artery or sham surgeries were conducted. Mice were administered tamoxifen citrate diet ad libitum immediately after surgery to promote excession of myofibroblast yap and left ventricles were collected 4 days post injury.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Left ventricles of mice taken 4 days after surgery were homogenized in TRIzol. RNA was subsequently collected and purified by phenol/chloroform extraction. RNA quality was determined using an Agilent BioAnalyzer.
RNA libraries were prepared by BGI Americas
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
Pos_MI_1
|
| Data processing |
Sequencing was performed using a DNBSEQ-G400 platform at 20M single-end reads per sample.
Reads were filtered using SOAPnuke (v1.5.2) removing reads with adaptors and unknown bases > 0.1%.
Bowtie2 (v2.2.5) was used to map reads to the mm10
Expression data was generated using RSEM (v1.2.12)
Genome_build: mm10
Supplementary_files_format_and_content: FPKM values for each Sample and expression data for each experimental group (as indicated in the file name)
|
| |
|
| Submission date |
Dec 15, 2020 |
| Last update date |
Oct 29, 2022 |
| Contact name |
Michael Andrew Flinn |
| Organization name |
Medical College of Wisconsin
|
| Department |
Physiology
|
| Lab |
O'Meara Lab
|
| Street address |
8701 W Watertown Plank Rd
|
| City |
Wauwatosa |
| State/province |
WI |
| ZIP/Postal code |
53226 |
| Country |
USA |
| |
|
| Platform ID |
GPL28457 |
| Series (2) |
| GSE163269 |
RNA-Seq of injured mouse hearts depleted for myofibroblast Yap [I] |
| GSE163617 |
RNA-seq of injured mouse hearts depleted for myofibroblast Yap or Yap and Wwtr1 |
|
| Relations |
| BioSample |
SAMN17086111 |
| SRA |
SRX9688361 |
