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Sample GSM1598140 Query DataSets for GSM1598140
Status Public on Jan 31, 2015
Title MA-347
Sample type RNA
Source name fibroblast
Organism Homo sapiens
Characteristics cell type: fibroblast
Treatment protocol No treatment applied.
Growth protocol Episomal vectors encoding reprogramming factors (OCT3/4, SOX2, KLF4, L-MYC, LIN28 and p53 shRNA) were transduced into fibroblasts on day 0 as described previously (Okita et al., 2011). The transfected cells were reseeded onto feeder layers on day 7, and maintained in embryonic stem cell medium (ReproCELL). Around day 30, the iPSC colonies were picked up and expanded. Cell culture was performed under 37°C , with 5% CO2 and 21% O2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified using RNA mini kit (QIAGEN) according to manufacturer’s instruction.
Label Cy3
Label protocol 100 ng of total RNA was first amplified with WT-OvationTM Pico System (Nugen). The RNA was labelled with Cy3 using Genomic DNA Enzymatic Labeling Kit (Agilent Technologies).
Hybridization protocol Labelled cDNA was fragmented with Gene Expression Hybridization Kit (Agilent Technologies), followed by hybridization at 65˚C for 17 hrs.
Scan protocol Images were acquired by DNA Microarray Scanner (Agilent Technologies)
Description 13_fibro
Data processing Raw data were processed with FeatureExtraction version Normalization among samples were performed by GeneSpring GX 12.6.1. Signal were normalized to 75% percentile.
Submission date Jan 30, 2015
Last update date Jan 31, 2015
Contact name Megumu Saito
Organization name Kyoto University
Street address 53, Shogoin-Kawahara
City Kyoto
ZIP/Postal code 6068507
Country Japan
Platform ID GPL17077
Series (1)
GSE65470 Modeling the early phenotype at the neuromuscular junction of spinal muscular atrophy using patient-derived iPSCs

Data table header descriptions
VALUE Normalized signal intensity

Data table
GE_BrightCorner 8.113972
DarkCorner -7.0298114
A_23_P117082 4.3177776
A_33_P3246448 0.21945381
A_33_P3318220 -7.178546
A_33_P3236322 -4.6467204
A_33_P3319925 -4.3933873
A_21_P0000509 4.1193466
A_21_P0000744 1.2354317
A_24_P215804 -0.8798237
A_23_P110167 1.4944849
A_33_P3211513 -1.4799442
A_23_P103349 -6.282208
A_32_P61480 -7.175253
A_33_P3788124 -6.05807
A_33_P3414202 -1.1768308
A_33_P3316686 -1.0009575
A_33_P3300975 1.8669767
A_33_P3263061 4.095196
A_33_P3261373 -7.18649

Total number of rows: 50739

Table truncated, full table size 1189 Kbytes.

Supplementary file Size Download File type/resource
GSM1598140_13_fibro.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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