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Sample GSM1084803 Query DataSets for GSM1084803
Status Public on Sep 13, 2016
Title Fetal Fibroblasts
Sample type RNA
 
Source name Fetal Fibroblasts
Organism Homo sapiens
Characteristics cell type: Fetal Fibroblasts
cell line: GM02340
Biomaterial provider Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM02340
Extracted molecule total RNA
Extraction protocol Total RNA was prepared as described in the RNeasy Mini Kit (Qiagen) with on-column DNase I digestion. RNA quality was assessed by Nanodrop-1000 spectrometer for OD260/280 and OD260/230 ratio and Bioanalyzer (Agilent Technologies).
Label Cy3
Label protocol 500 ng total RNA from each sample was amplified and labeled using the Illumina TotalPrep RNA Amplification Kit (AMIL1791, Ambion, Austin, TX) as described in the instruction manual.
 
Hybridization protocol For array assay, 750 ng biotin-labeled cRNA was combined with hybridization buffer and hybridized to the array at 58°C for 16-20 hours. After hybridization, the hybridization cartridge was disassembled and the array was washed with buffer at 55C and blocked at room temperature. Bound biotinylated cRNA was stained with streptavidin-Cy3 and then washed. Illumina HumanHT-12 V3.0 expression beadchips were used for all analyses in this series.
Scan protocol Fluorescent signals were obtained by scanning with the iScan System.
Description Individual sample
Data processing Data were extracted with Gene Expression Module 1.0.6 in GenomeStudio 1.0.2 and signal intensities from multiple chips comprising this single series were quantile normalized without background subtraction to obtain normalized data as deposited.
 
Submission date Feb 20, 2013
Last update date Sep 13, 2016
Contact name Elias Thomas Zambidis
Organization name Johns Hopkins School of Medicine
Department Oncology
Street address 733 N. Broadway
City Baltimore
State/province MD
ZIP/Postal code 21205
Country USA
 
Platform ID GPL16700
Series (2)
GSE44421 Global gene expression analysis of donor cells, low passage episomal stromal-primed myeloid iPSC, and intermediate passage fibroblast iPSC.
GSE44430 Comprehensive microarray analysis of reprogramming fidelity in a library of non-integrated induced pluripotent stem cell lines prepared with various derivation methods

Data table header descriptions
ID_REF
VALUE signal intensity

Data table
ID_REF VALUE
7A5 99.6
A1BG 103.9
A1CF 107.5
A26C3 106.1
A2BP1 102
A2M 96.9
A2ML1 97
A3GALT2 95.5
A4GALT 146
A4GNT 144.6
AAA1 107.1
AAAS 162.2
AACS 270
AACSL 116
AADAC 105.7
AADACL1 419.3
AADACL2 132.5
AADACL3 107.3
AADACL4 123.8
AADAT 138.3

Total number of rows: 37867

Table truncated, full table size 514 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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