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Sample GSM1099454 Query DataSets for GSM1099454
Status Public on Jun 01, 2013
Title C1_12_iPS_minus_Mel_p8
Sample type RNA
 
Source name Coriell Cell Repository (GM17569), mature melanocytes, C1
Organism Homo sapiens
Characteristics cell line: GM17569
cell type: disease-specific induced pluripotent stem cell-derived melanocytes
cell stage: mature melanocytes
genotype: C1
day of collection/passage: passage 8
clone: S12
Treatment protocol hESCs were plated on matrigel for differentiation and grown in the presence of 100 nM LDN-193189, 10 uM SB431542, 3 uM CHIR 99021 (Stemgent), 25 ng/ml BMP4 (R&D) and 100nM EDN3 (American Peptide Company) for BE. Cells were dissociated at day 11 and replated on poly-ornithine-, laminin-, and fibronectin-coated plates in NB/Mel media. NB/Mel media was prepared by replacing the WNT3A-CM component in Mel-1 media (Fang et al., 2006) with Neurobasal (Invitrogen) medium containing 2% B27 supplement (Invitrogen), 3μM Chir, 25 ng/ml BMP4, and 500 μM dbcAMP. Cells were fed every other day and passaged weekly for maintenance and expansion.
Growth protocol hESCs (WA09; passages 32-50) were cultured with mouse embryonic fibroblasts (MEFs, Globalstem) pre-plated at 12-15,000 cells/cm2. hESC cells were grown in DMEM:F12 hESC media containing 6ng/mL FGF2 and passaged using dispase or accutase. Primary melanocytes were maintained in M254 media with HMGS supplement (Invitrogen).
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with the QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with an Agilent Bioanalyser.
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 Replicate 3.
Data processing The data were normalised using quantile normalisation in Partek Genomics Suite software.
 
Submission date Mar 15, 2013
Last update date Jun 01, 2013
Contact name Yvonne Mica
E-mail(s) grubery@mskcc.org
Organization name Memorial Sloan-Kettering Cancer Center
Street address 1275 York Avenue
City New York
State/province NY
ZIP/Postal code 10021
Country USA
 
Platform ID GPL10904
Series (2)
GSE45226 Genome-wide analysis of gene expression in human pluripotent stem cell-derived melanocyte progenitors, mature melanocytes, and disease-specific melanocytes
GSE45227 Genome-wide analysis of gene expression in melanocytes derived from human embryonic stem cells and patient specific induced pluripotent stem cells

Data table header descriptions
ID_REF
VALUE Quantile-normalized signal intensity

Data table
ID_REF VALUE
7A5 6.5096
A1BG 6.52791
A1CF 6.51325
A26C3 6.48735
A2BP1 6.47603
A2LD1 7.41248
A2M 7.61658
A2ML1 6.21234
A3GALT2 6.60781
A4GALT 6.40697
A4GNT 6.52603
AAA1 6.5234
AAAS 7.16144
AACS 7.48644
AACSL 6.97991
AADAC 6.60796
AADACL1 7.41473
AADACL2 6.63412
AADACL3 6.55598
AADACL4 6.77255

Total number of rows: 34694

Table truncated, full table size 543 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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