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Sample GSM442698 Query DataSets for GSM442698
Status Public on Nov 06, 2009
Title MM-035_GEP
Sample type RNA
 
Source name Human multiple myeloma patient MM-035
Organism Homo sapiens
Characteristics sex: M
age at diagnosis (years): 74
stage (durie-salmon): IA
monoclonal component: nd
tc classification: TC2
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-035
Same raw data (CEL file) as GSM341975
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 http://www.xlab.unimo.it/GA_CDF, 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
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 GPL9021
Series (1)
GSE17498 Identification of MicroRNA Expression Patterns and a MicroRNAs/mRNA Regulatory Network in Multiple Myeloma

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

Data table
ID_REF VALUE
GC00U921857_at 5.372845406
GC00U922298_at 4.779571199
GC00U990668_at 4.140342824
GC00U990680_at 5.459754978
GC00U990706_at 5.165977929
GC00U990756_at 5.627826015
GC00U990780_at 7.052217776
GC00U990809_at 5.852141053
GC00U990811_at 4.488873037
GC00U990813_at 6.378814574
GC00U991001_at 4.191995984
GC01M000752_at 4.163785623
GC01M000869_at 7.446722378
GC01M001136_at 7.639968524
GC01M001143_at 8.753108
GC01M001236_at 7.911677316
GC01M001261_at 6.545536404
GC01M001329_at 4.395123321
GC01M001646_at 5.111817692
GC01M001715_at 7.555522911

Total number of rows: 12279

Table truncated, full table size 322 Kbytes.




Supplementary file Size Download File type/resource
GSM442698.CEL.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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