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Sample GSM1084994 Query DataSets for GSM1084994
Status Public on Jan 10, 2015
Title control 1
Sample type RNA
Source name bone marrow mesenchymal stromal cell from healthy donor
Organism Homo sapiens
Characteristics disease state: no disease
cell type: bone marrow mesenchymal stromal cell
Treatment protocol After adhesion cells were amplified during 3 passages in alphaMEM with 10% of FCS. Between each passage cells were trypsinated
Growth protocol Mononuclear cells from human bone marrow were separate were separate by Ficoll and cultivated in medium alphaMEM with 10% of FCS
Extracted molecule total RNA
Extraction protocol RNA was isolated using standard RNA extraction protocols (NucleoSpin RNA II, Macherey-Nagel). RNA samples were quality-checked via the Agilent 2100 Bioanalyzer Platform (Agilent Technologies)
Label Cy3
Label protocol 1µg of total RNA sample was used for linear T7-based amplification. To produce Cy3-labeled cRNA, the RNA samples were amplified and labeled using the Agilent Quick Amp Labeling Kit/Low RNA Input Linear Amp Kit (Agilent Technologies) following manufacturer's protocol.
Hybridization protocol The hybridization procedure was performed according to the Agilent 60-mer oligo microarray processing protocol using Agilent Gene Expression Hybridization Kit (Agilent Technologies). 1,65µg Cy3-labeled fragmented cRNA in hybridization buffer was hybridized overnight (17 hours, 65°C) to Agilent Whole Human Genome Oligo Microarrays 4x44k using Agilent's recommended hybridization chamber.
Scan protocol Fluorescence signals of the hybridized Agilent Microarrays were detected using Agilent's Microarray Scanner System (Agilent Technologies). The Agilent Feature Extraction Software (FES) v9,1 was used to read out and process the microarray image files. The software determines feature intensities including background subtraction.
Description no disease
Data processing standard Agilent Feature Extraction normalization
Submission date Feb 20, 2013
Last update date Jan 10, 2015
Contact name christophe desterke
Phone +33 (0)145595316
Organization name university Paris Sud11
Department UFR medecine institute Andre Lwoff
Lab hopital Paul Brousse Batiment Lavoisier
Street address 14-16 avenue Paul Vaillant Couturier
ZIP/Postal code 94807
Country France
Platform ID GPL4133
Series (1)
GSE44426 Transcriptome analysis of bone marrow mesenchymal stromal cells from patients with Primary Myelofibrosis

Data table header descriptions
VALUE Normalized signal intensity

Data table
1 9.77E+04
2 2.31E+00
3 2.31E+00
4 2.32E+00
5 2.33E+00
6 2.33E+00
7 2.34E+00
8 2.34E+00
9 2.35E+00
10 2.35E+00
11 2.36E+00
12 5.84E+02
13 4.34E+01
14 8.82E+02
15 1.40E+01
16 8.53E+03
17 2.37E+00
18 2.68E+02
19 7.15E+04
20 8.03E+00

Total number of rows: 45015

Table truncated, full table size 648 Kbytes.

Supplementary file Size Download File type/resource
GSM1084994_251485057087_S01_GE1_105_Jan09_1_4.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file
Processed data are available on Series record

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