|
| Status |
Public on Feb 27, 2019 |
| Title |
MM at diagnosis, sample 6 |
| Sample type |
RNA |
| |
|
| Source name |
Highly purified PCs from MM patient
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Bone marrow plasma cells
|
| Treatment protocol |
Plasma cells were purified from bone marrow samples using CD138 immunomagnetic microbeads according to the manufacturer's instructions (MidiMACS system, Miltenyi Biotec); the purity of the positively selected PCs was assessed by morphology and flow cytometry and was > 90% in all cases.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions (Gibco BRL).
|
| Label |
biotin
|
| Label protocol |
500 ng of total RNA were converted to biotin-labeled RNA using the FlashTag Biotin HSR Labeling kit, according to Affimetrix protocol
|
| |
|
| Hybridization protocol |
Byotin-labeled RNA samples were hybridized for 16 hours at 48°C on GeneChip miRNA 3.0 array, according to the standard manifacturer's protocol, using the GeneChip Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
Scanning of the arrays was performed using the GeneChip Scanner 7G.
|
| Description |
hyperdiploid karyotype
|
| Data processing |
Raw data were extracted from CEL files and then normalized using robust multi-array average (RMA) procedure in the affy package for Bioconductor and the miRbase Release 21 annotations included in the corresponding cdf definition files available at the University of Michigan Brainarray portal at http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/21.0.0/version.html). Annotations were referred to miRBase Release 21 definition.
|
| |
|
| Submission date |
Jul 13, 2018 |
| Last update date |
Feb 27, 2019 |
| Contact name |
Luca Agnelli |
| E-mail(s) |
luca.agnelli@istitutotumori.mi.it, luca.agnelli@gmail.com
|
| Phone |
+390223903581
|
| Organization name |
IRCCS Istituto Nazionale dei Tumori
|
| Department |
Department of Advanced Diagnostics
|
| Street address |
Venezian 1
|
| City |
MILAN |
| ZIP/Postal code |
20133 |
| Country |
Italy |
| |
|
| Platform ID |
GPL25329 |
| Series (2) |
| GSE117113 |
New and subgroup-specific miRNAs and miRNA-offset RNA unraveled by RNA-sequencing in multiple myeloma [array] |
| GSE117366 |
New and subgroup-specific miRNAs and miRNA-offset RNA unraveled by RNA-sequencing in multiple myeloma |
|
| Relations |
| Reanalysis of |
GSM2341445 |
