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Sample GSM1602528 Query DataSets for GSM1602528
Status Public on Nov 28, 2019
Title HDF51_FIBRO____166.411.1.1
Sample type RNA
 
Source name HDF51_FIBRO
Organism Homo sapiens
Characteristics cell line: HDF51
cell/tissue type: Adult Dermal Fibroblast
pipeline sample id: 166.411.1.1
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 5
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 60.93712144
ILMN_2055271 94.15111149
ILMN_2383229 45.7987512
ILMN_1806310 61.56280481
ILMN_1779670 65.90898421
ILMN_1653355 75.48606023
ILMN_1814316 56.17206376
ILMN_2359168 36.24156714
ILMN_1731507 35.37391872
ILMN_3241953 350.5372651
ILMN_1745607 40.63377847
ILMN_2136495 33.71240974
ILMN_1735045 407.2045183
ILMN_1680754 65.00081902
ILMN_2375184 50.91939812
ILMN_1659452 57.4144497
ILMN_1767388 50.35765287
ILMN_1755321 223.4344096
ILMN_1698554 225.0356096
ILMN_1814092 107.0613098

Total number of rows: 36897

Table truncated, full table size 896 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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