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Sample GSM2341447 Query DataSets for GSM2341447
Status Public on Feb 10, 2017
Title mirMM.052-MM95db
Sample type RNA
 
Source name Newly-diagnosed MM patient 052
Organism Homo sapiens
Characteristics diagnosis: multiple myeloma
tissue: primary tumor
t(4;14) translocation: n
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 microRNA expression data from multiple myeloma newly-diagnosed primary tumor.
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 18 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/18.0.0/version.html). Annotations were then updated to miRBase Release 20 definition using the mirna.diff files available at the miRbase website
 
Submission date Oct 11, 2016
Last update date Jul 13, 2018
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 GPL16384
Series (2)
GSE87828 In silico characterization of miRNA and long non-coding RNA interplay in multiple myeloma (95 MM miRNA data sets)
GSE87830 In silico characterization of miRNA and long non-coding RNA interplay in multiple myeloma
Relations
Alternative to GSM1721931
Reanalyzed by GSM3271448

Supplementary file Size Download File type/resource
GSM2341447_mirMM.052.CEL.gz 844.9 Kb (ftp)(http) CEL
Processed data are available on Series record

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