|
| Status |
Public on Jan 20, 2009 |
| Title |
500 ng total RNA, Prep. 2 |
| Sample type |
RNA |
| |
|
| Source name |
Microvesicles (MV) from Mesenchymal Stem Cells (MSC)
|
| Organism |
Homo sapiens |
| Characteristics |
MVs were obtained from supernatants of MSCs cultured in RPMI deprived of FCS and supplemented with 0.5% of BSA (Sigma).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from MVs using TRIZOL reagent (Invitrogen) following the procedure suggested by the manufacturer.
|
| Label |
Biotin
|
| Label protocol |
cRNA synthesis and labeling was done using Illumina RNA Amplification Kit (Ambion) following the procedure suggested by manufacturer.
|
| |
|
| Hybridization protocol |
Hybridization, washing and staining were done as suggested by the manufacturer.
|
| Scan protocol |
Arrays were scanned on Illumina BeadStation 500 (Illumina, San Diego, CA, USA)
|
| Description |
MVs obtained from MSCs contained mRNA. To identify the mRNA species shuttled by the MVs we used microarray analysis. Specifically, microarrays were used not to define the amount of mRNA in the MVs but only to define which transcripts were present. Transcripts present in the MVs were defined as those characterized by a positive linear relation between the transcript signal detected by the microarray analysis and the amount of total RNA hybridized. This analysis was done hybridizing arrays with labelled-cRNA produced using three different concentrations of total RNA extracted from two independent preparations of MVs.
|
| Data processing |
BeadChip array data quality control was performed using Illumina BeadStudio software version 1.3.1.5. Transcript average intensity signals were calculated with BeadStudio without background correction. Raw data were analyzed using Bioconductor. Average transcript intensities were log2 transformed and normalized by loess method.
|
| |
|
| Submission date |
Jul 25, 2008 |
| Last update date |
Jan 20, 2009 |
| Contact name |
Raffaele A Calogero |
| E-mail(s) |
raffaele.calogero@unito.it
|
| Phone |
++39 0116706454
|
| Organization name |
University of Torino
|
| Department |
Molecular Biotechnology Center
|
| Lab |
Bioinformatics and Genomics Unit
|
| Street address |
Via Nizza 52
|
| City |
Torino |
| State/province |
To |
| ZIP/Postal code |
10126 |
| Country |
Italy |
| |
|
| Platform ID |
GPL6102 |
| Series (1) |
| GSE12243 |
Microvesicles derived from human mesenchymal stem cells protect against acute tubular injury |
|
