|
| Status |
Public on Sep 06, 2023 |
| Title |
HA-VSMC cells, miRNA-Seq, Control, rep3 |
| Sample type |
SRA |
| |
|
| Source name |
HA-VSMC
|
| Organism |
Oryctolagus cuniculus |
| Characteristics |
cell line: HA-VSMC
estrogen concentration: WT
treatment: estrogen
|
| Treatment protocol |
β-estradiol power (E2257,Sigma) was dissolved in DMSO with 3.7% filtered sodium hydrogen carbonate. After incubation of the final concentration of β-estradiol with 250nmol/L, cells were incubated at 37°C and 5% CO2 for 48 h before harvested.
|
| Growth protocol |
HA-VSMC cells were cultured in RPMI1640 containing L-Glutamine ( C11875500BT, Gibco), and 10% FBS (10099141, Gibco), at 37℃ in a 5% CO2 incubator. Cells were seeded at a density of 2 × 105 viable cells /mL, and passaged every 3–4 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For RNA isolation, total RNA was isolated using TRIzol reagent.
A total of 2 μg of RNA/sample was used as input material for the miRNA library. The miRNA sequencing libraries were generated using a TruSeq Small RNA Sample Preparation Kit, and index codes were added to attribute sequences to each sample.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
The quality of the samples, experiment, and the analysis data were completed by the Genesky Biotechnologies Inc.
The known mature miRNA expression profile was generated by using the quantifier module of the miRDeep2 package, which gives read counts for the known miRNAs.
The raw reads’ expression profiles generated for all the replicates of the samples were subjected to trimmed mean of M-values’ (TMM) normalization using the Bioconductor package edgeR.
Assembly: oryCun2
Supplementary files format and content: tab-delimited text files include raw counts for each Sample
|
| |
|
| Submission date |
Sep 01, 2023 |
| Last update date |
Sep 06, 2023 |
| Contact name |
Qiu Xie |
| E-mail(s) |
xieqiu1999@126.com
|
| Organization name |
Peking Union Medical College Hospital
|
| Street address |
No.1 Shuaifuyuan Wangfujing Dongcheng District
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100730 |
| Country |
China |
| |
|
| Platform ID |
GPL21255 |
| Series (2) |
| GSE242148 |
The retinol-binding protein receptor STRA6 contributes to the pathogenesis of adenomyosis via Wnt/β-catenin pathway depression [microRNA] |
| GSE242149 |
The retinol-binding protein receptor STRA6 contributes to the pathogenesis of adenomyosis via Wnt/β-catenin pathway depression |
|
| Relations |
| BioSample |
SAMN37231202 |
| SRA |
SRX21591507 |
