NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1602534 Query DataSets for GSM1602534
Status Public on Nov 28, 2019
Title JEG3_CHORIOCA____2.2424.1.1
Sample type RNA
 
Source name JEG3_CHORIOCA
Organism Homo sapiens
Characteristics cell line: JEG3
cell/tissue type: Choriocarcinoma-derived cell line
pipeline sample id: 2.2424.1.1
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 11
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

Data table header descriptions
ID_REF
VALUE normalized

Data table
ID_REF VALUE
ILMN_1762337 50.83490915
ILMN_2055271 83.65552038
ILMN_2383229 55.49223701
ILMN_1806310 70.02134753
ILMN_1779670 52.93282242
ILMN_1653355 58.98712665
ILMN_1814316 45.7525967
ILMN_2359168 45.11747424
ILMN_1731507 30.0821109
ILMN_3241953 199.6804708
ILMN_1745607 25.1287079
ILMN_2136495 142.7414115
ILMN_1735045 808.4894166
ILMN_1680754 68.93406934
ILMN_2375184 42.01066029
ILMN_1659452 57.61009462
ILMN_1767388 55.42082281
ILMN_1755321 244.4393937
ILMN_1698554 265.5034393
ILMN_1814092 102.182491

Total number of rows: 36897

Table truncated, full table size 896 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap