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Sample GSM916203 Query DataSets for GSM916203
Status Public on Oct 03, 2013
Title adipose- derived stem cells Donor 1
Sample type RNA
 
Source name Adult stem cell
Organism Homo sapiens
Characteristics cell type: Adult stem cell
Extracted molecule total RNA
Extraction protocol For the expression microarray experiment in hASCs and in vitro differentiated cells, total RNA was prepared using TRIZOL® (Invitrogen, Carlsbad, CA) and further purified using RNeasy columns (Qiagen, GmbH) according to the manufacturer’s instructions. The integrity of RNA was monitored by both Byoanalyzer and spectrometric measurement
Label Biotin
Label protocol Biotinylated target RNA was prepared from 200 ng of total RNA using the Affymetrix protocol. Briefly, double-stranded cDNA was prepared from the RNA template using the Ambion WT Expression kit following manufacturer’s instructions.
 
Hybridization protocol The resulting cRNA target was randomly fragmented using UDG (Uracil DNA Glycosylase) and APE1 (apurinic/apyrimidic endonuclease 1), labelled with the terminal transferase (WT Terminal Labelling kit, Affymetrix) and hybridized on the Human Gene 1.1 ST 16-array (Affymetrix, Santa Clara, CA)
Scan protocol The hybridization reactions were processed and scanned according to the standard GeneTitanTM (Affymetrix, Santa Clara, CA) protocols.
Description ASC1
Data processing All arrays were globally scaled to a target-intensity value of 100 and then the scaling factor, background, noise, and percentage present were calculated according to the Command Console (AGCC 2.0) and Expression Console (EE 1.1) softwares (Affymetrix, Santa Clara, CA). All resulting datasets were filtered using the absolute call metric (present or absent) using Microsoft Access (Microsoft Corporation, Redmond, WA). The resulting values represent the transcript abundance (absolute value) following Affymetrix statistical’s procedure. Three biological replicates were done for each ASC sample and in vitro differentiated cells were analysed in duplicate.
 
Submission date Apr 17, 2012
Last update date Oct 04, 2013
Contact name Manel Esteller
Organization name IDIBELL
Department PEBC
Lab Cancer Epigenetics
Street address Hospital Duran i Reynals Av. Gran Via s/n km, 2.7
City L'Hospitalet de Llobregat
State/province Barcelona
ZIP/Postal code 08908
Country Spain
 
Platform ID GPL11532
Series (1)
GSE37329 Genome-wide gene expression during osteogenic and myogenic differentiation from adipose- derived stem cells.

Data table header descriptions
ID_REF
VALUE RMA signal estimates from Expression Console Software version 1.1

Data table
ID_REF VALUE
7892501 4.514715992
7892502 3.881211982
7892503 2.668998052
7892504 6.600744646
7892505 2.356822008
7892506 3.624588691
7892507 4.218661423
7892508 4.733076886
7892509 10.57434726
7892510 4.27804554
7892511 3.018540593
7892512 3.989259588
7892513 2.875246468
7892514 10.62952525
7892515 7.737686072
7892516 3.815110286
7892517 4.76971516
7892518 4.08967616
7892519 4.301212599
7892520 7.809284819

Total number of rows: 33297

Table truncated, full table size 646 Kbytes.




Supplementary file Size Download File type/resource
GSM916203_10SE1639.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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