|
| Status |
Public on Nov 25, 2019 |
| Title |
7911747040_B: 14836-DAY5 |
| Sample type |
RNA |
| |
|
| Source name |
villous trophoblast culture, replicate 2, day 5
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: villous trophoblast
differentiation day: 5
|
| Treatment protocol |
The effect of trophoblast differentiation on gene expression was tested by keeping primary trophoblasts in IMDM containing 5% non-pregnant human serum and 1% P/S for 7 days. The medium was replenished every 24h, and cells were harvested for total RNA in every 24h.
|
| Growth protocol |
Placentas were taken from normal pregnant women delivering at term. Primary villous trophoblasts were isolated and plated on collagen-coated 12-well plates at 3x1,000,000 cells/well density in Iscove’s modified Dulbecco’s medium supplemented with 10% fetal bovine serum and 1% penicillin/streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from primary trophoblasts harvested on Days 0-7 of differentiation with RNeasy kit.
|
| Label |
biotin
|
| Label protocol |
DNase-treated RNA samples (n=24; 500ng) were amplified and biotin-labeled with the Illumina TotalPrep RNA Amplification Kit.
|
| |
|
| Hybridization protocol |
Labeled cRNAs were hybridized to HumanHT-12v4 Expression BeadChips.
|
| Scan protocol |
BeadChips were imaged using an Illumina BeadArray Reader, and raw data were obtained with Illumina BeadStudio Software V.3.4.0.
|
| Description |
replicate 2, day 5
|
| Data processing |
Expression intensities were background-corrected using the default method in the lumiR function of the LUMI package. Data was variance stabilized via log2 transformation and normalized with the quantile method. From the 47,307 probes on the array, we included those 25,025 probes (14,197 unique genes) into the further steps of analysis which had at least two samples with a False Discovery Rate (FDR)-adjusted p-value of <0.1.
|
| |
|
| Submission date |
Apr 25, 2019 |
| Last update date |
Nov 25, 2019 |
| Contact name |
Gábor Nándor Than |
| Organization name |
Research Centre for Natural Sciences
|
| Department |
Institute of Enzymology
|
| Lab |
Systems Biology of Reproduction
|
| Street address |
Magyar tudósok krt. 2
|
| City |
Budapest |
| ZIP/Postal code |
1117 |
| Country |
Hungary |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE130339 |
Placenta-specific genes and their regulation during villous trophoblast differentiation. |
|
