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Sample GSM1329713 Query DataSets for GSM1329713
Status Public on May 14, 2015
Title MSC-5H-GFP_rep2
Sample type RNA
Source name BM-derived hMSCs_5 oncogenic hits+control (GFP)
Organism Homo sapiens
Characteristics tissue: bone marrow
cell type: Human Mesenchymal Stem Cells (hMSCs)
transduced with: 5 oncogenic hits and control (GFP) lentiviral vector
tissue: MSCs from BM
tumor stage: tumorogenic
Treatment protocol No treatment
Growth protocol All cell cultures were maintained in complete MSC growth medium (DMEM-Advanced, 10% FBS, 1% Pen/Strep and 1% Glutamax).
Extracted molecule total RNA
Extraction protocol Duplicate independent cultures of MSCs (MSC-0H-GFP and MSC-5H-GFP) were collected during the exponential cell growth and stabilized in RNA later (Ambion, Austin, TX) solution until RNA extraction. RNA was isolated using the Agilent Total RNA Isolation Kit (Agilent Technologies, Palo Alto, CA) and its quality (RNA integrity ≥ 9 ) checked in the Agilent 2100 Bioanalyzer.
Label Cy3
Label protocol Total RNA samples were labeled with Cy3 using the Quick-Amp Labeling kit following Manufacturer’s instructions (Agilent Technologies, CA)
Hybridization protocol Duplicated samples were hybridized to Whole human Genome 8x60K Microarray (G4851A) following Manufacturer’s instructions (Agilent Technologies, CA).
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B)
Description MSC5HGFP rep2
Data processing Primary data was examined using GeneSpring 11.0 software (Silicon Genetics, Redwood City, CA). Gene expression in the control and experimental groups was compared using Student's t test and a Benjamini Hochberg multi-testing correction. Only genes satisfying the threshold of P value < 0.05 and a fold change expression> 2 were included and assigned as significant. Analysis of pathways significantly altered was performed using the Ingenuity Pathway software 8.0 (IPA; Ingenuity Systems, Inc., Redwood City, CA).
Submission date Feb 18, 2014
Last update date Jan 15, 2022
Contact name Marcos J. Araúzo-Bravo
Phone +34 943 00 6108
Organization name Max Planck Institute for Molecular Biomedicine
Department Cell and Developmental Biology
Lab Computational Biology and Bionformatics
Street address Rogentstrasse
City Muenster
ZIP/Postal code 48149
Country Germany
Platform ID GPL13607
Series (1)
GSE55108 Loss of immunosuppressive and anti-inflammatory properties in transformed human mesenchymal stem cells

Data table header descriptions
VALUE Normalized signal intensity

Data table
1 14.352116
2 0.532830
3 0.533605
4 8.414985
5 11.280186
6 5.973492
7 13.473155
8 10.347719
9 1.660839
10 5.969298
11 0.533261
12 9.931657
13 11.380649
14 9.202426
15 13.955400
16 0.528869
17 7.084482
18 0.527403
19 0.526453
20 10.140863

Total number of rows: 62976

Table truncated, full table size 926 Kbytes.

Supplementary file Size Download File type/resource
GSM1329713_US82003505_252800412673_S01_GE1_107_Sep09_1_3.txt.gz 3.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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