|
| 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 |
| E-mail(s) |
mararabra@yahoo.co.uk
|
| 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 |
|
