|
| Status |
Public on Nov 28, 2019 |
| Title |
JEG3_CHORIOCA____2.2424.2.1 |
| Sample type |
RNA |
| |
|
| Source name |
JEG3_CHORIOCA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: JEG3
cell/tissue type: Choriocarcinoma-derived cell line
pipeline sample id: 2.2424.2.1
|
| Treatment protocol |
For trophoblast differentiation, WA09_HESC cells were treated with 10ng/mL of BMP4 (R&D Systems) in minimal media composed of DMEM/F12, 2%BSA, 1% ITS, 2mM L-Glutamine, 1% non-essential aminoacids, and 0.1mM 2-mercaptoethanol for 4 days.
|
| Growth protocol |
WA09_HESC were grown in StemPro (Invitrogen) with 12ng/mL bFGF. BEWO cells were cultured in F12 +10FBS, HTR8 in RPMI +10%FBS and JEG3 cells in DMEM +10%FBS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified using the MirVana RNA extraction kit (Ambion). Total RNA was quantified using the Ribogreen reagent (Lifetech, Inc.), and quality-controlled on a Bioanalyzer (Agilent). Two hundred nanograms of input total RNA was amplified and labeled using the TotalPrep kit (Ambion). The labeled product was then hybridized to Illumina HT12 arrays and scanned on a BeadArray Reader (Illumina, Inc.) according to the manufacturer’s instructions.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
SAMPLE 12
|
| Data processing |
The data were filtered for detection pValue > 0.01 and normalised using Robust Spline Normalisation with lumi in R version 2.14.2
|
| |
|
| Submission date |
Feb 05, 2015 |
| Last update date |
Nov 28, 2019 |
| Contact name |
Mana Parast |
| E-mail(s) |
mparast@ucsd.edu
|
| Organization name |
University of California San Diego
|
| Department |
Pathology
|
| Lab |
Sanford Consortium for Regenerative Medicine - Rm 4817
|
| Street address |
9500 Gilman drive #0695
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE65654 |
Derivation of a CDX2+/p63+ human cytotrophoblast stem cell from pluripotent stem cells in defined conditions |
|
