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Sample GSM442719 Query DataSets for GSM442719
Status Public on Nov 06, 2009
Title MM-177_GEP
Sample type RNA
Source name Human multiple myeloma patient MM-177
Organism Homo sapiens
Characteristics sex: M
age at diagnosis (years): 73
stage (durie-salmon): IIIA
monoclonal component: Gk
tc classification: TC3
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). RNA was purified using the Rneasy Mini Kit according to the manufacturer's instruction (Qiagen).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 micrograms of total RNA (Expression Analysis Technical Manual, Affymetrix).
Hybridization protocol Following fragmentation, 15 micrograms of cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip HG-U133A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol HG-U133A arrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
Description Gene expression profiling data from human multiple myeloma patient MM-177
Same raw data (CEL file) as GSM342029
Data processing The probe-level signals were converted to expression values using custom GeneAnnot-based Chip Annotation Files version 2.0.1 (CDF), available at the URL, and the Bioconductor function for Robust Multi-array Analysis (RMA), in which perfect match intensities are background adjusted, normalized by means of quantile-quantile normalization, and log2 transformed.
Submission date Aug 20, 2009
Last update date Nov 05, 2009
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 GPL9021
Series (1)
GSE17498 Identification of MicroRNA Expression Patterns and a MicroRNAs/mRNA Regulatory Network in Multiple Myeloma

Data table header descriptions
VALUE RMA normalized signal intensity (40 samples)

Data table
GC00U921857_at 5.622351141
GC00U922298_at 5.289216585
GC00U990668_at 4.060221123
GC00U990680_at 5.713603297
GC00U990706_at 5.675226805
GC00U990756_at 6.22240602
GC00U990780_at 7.374299378
GC00U990809_at 6.009391787
GC00U990811_at 4.94325403
GC00U990813_at 6.526762472
GC00U991001_at 4.291065474
GC01M000752_at 4.380317481
GC01M000869_at 7.95112064
GC01M001136_at 7.955999001
GC01M001143_at 8.919105882
GC01M001236_at 8.506548803
GC01M001261_at 6.822446311
GC01M001329_at 4.22768302
GC01M001646_at 4.912595207
GC01M001715_at 7.498951882

Total number of rows: 12279

Table truncated, full table size 322 Kbytes.

Supplementary file Size Download File type/resource
GSM442719.CEL.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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