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Sample GSM442703 Query DataSets for GSM442703
Status Public on Nov 06, 2009
Title MM-040_GEP
Sample type RNA
Source name Human multiple myeloma patient MM-040
Organism Homo sapiens
Characteristics sex: F
age at diagnosis (years): 77
stage (durie-salmon): IIIB
monoclonal component: Gl
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-040
Same raw data (CEL file) as GSM342000
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 5.626162727
GC00U922298_at 4.923953237
GC00U990668_at 4.124486654
GC00U990680_at 5.397341186
GC00U990706_at 5.511720807
GC00U990756_at 5.799020307
GC00U990780_at 6.852107209
GC00U990809_at 5.688023998
GC00U990811_at 4.583769377
GC00U990813_at 6.551964252
GC00U991001_at 4.280530144
GC01M000752_at 3.973541814
GC01M000869_at 7.611157231
GC01M001136_at 7.573614526
GC01M001143_at 8.396670142
GC01M001236_at 8.362638171
GC01M001261_at 7.28509503
GC01M001329_at 4.166561795
GC01M001646_at 4.924476821
GC01M001715_at 8.030128862

Total number of rows: 12279

Table truncated, full table size 322 Kbytes.

Supplementary file Size Download File type/resource
GSM442703.CEL.gz 3.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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