GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM3271443 Query DataSets for GSM3271443
Status Public on Feb 27, 2019
Title MM at diagnosis, sample 2
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 MAF translocation
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 Annotations were referred to miRBase Release 21 definition.
Submission date Jul 13, 2018
Last update date Feb 27, 2019
Contact name Luca Agnelli
Phone +390223903581
Organization name IRCCS Istituto Nazionale dei Tumori
Department Department of Advanced Diagnostics
Street address Venezian 1
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
Reanalysis of GSM2341434

Data table header descriptions
VALUE RMA-normalized log2 signal

Data table
HAIRPIN_hsa-let-7a-1_at 11.16889742
HAIRPIN_hsa-let-7a-2_at 11.41504992
HAIRPIN_hsa-let-7a-3_at 11.2122192
HAIRPIN_hsa-let-7b_at 10.54546183
HAIRPIN_hsa-let-7c_at 12.67094834
HAIRPIN_hsa-let-7d_at 12.44366985
HAIRPIN_hsa-let-7e_at 4.996675549
HAIRPIN_hsa-let-7f-1_at 6.198746276
HAIRPIN_hsa-let-7f-2_at 6.5906892
HAIRPIN_hsa-let-7g_at 8.762474574
HAIRPIN_hsa-let-7i_at 10.67598189
HAIRPIN_hsa-mir-1-1_at 1.589006106
HAIRPIN_hsa-mir-1-2_at 1.58423309
HAIRPIN_hsa-mir-100_at 2.050360897
HAIRPIN_hsa-mir-101-1_at 1.614576091
HAIRPIN_hsa-mir-101-2_at 1.786045865
HAIRPIN_hsa-mir-103a-1_at 10.92131221
HAIRPIN_hsa-mir-103a-2_at 10.95194141
HAIRPIN_hsa-mir-103b-1_at 10.93364233
HAIRPIN_hsa-mir-103b-2_at 10.95089738

Total number of rows: 3204

Table truncated, full table size 113 Kbytes.

Supplementary file Size Download File type/resource
GSM3271443_GSM2341434_mirMM.025.CEL.gz 815.5 Kb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap