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Sample GSM601879 Query DataSets for GSM601879
Status Public on Sep 29, 2010
Title Patient 2, before month1 IFN-beta injection_chipB
Sample type RNA
 
Source name Peripheral blood mononuclear cells
Organism Homo sapiens
Characteristics gender: male
age at ifn-beta therapy onset (baseline blood sampling): 45
duration from ms diagnosis to therapy initiation (in months): 2
edss at baseline: 1.0
edss after 1 year: 1.0
edss after 2 years: 1.0
edss after 5 years: 1.5
number of relapses during the year prior to treatment: 2
number of relapses during 1-year follow-up: 0
number of relapses during 2-year follow-up: 0
number of relapses during 5-year follow-up: 0
time from start of therapy to the first relapse (in months): >60
completed years of ifn-beta therapy: >=5
Treatment protocol Patients were treated with subcutaneous IFN-beta-1b (Betaferon, Bayer Healthcare) at standard dose (250 µg every other day).
Growth protocol Patient blood samples were drawn immediately before first IFN-beta injection as well as two days, one, twelve and twenty-four months post therapy initiation.
Extracted molecule total RNA
Extraction protocol Blood was separated using isopycnic centrifugation (Ficoll), and peripheral blood mononuclear cells were lysed using chaotropic buffer and cleaned by RNeasy (Qiagen) according to the manufacturers' protocol.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 7 µg total RNA (Expression Analysis Technical Manual, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 µg of cRNA were hybridized for 16 h at 45°C on Affymetrix HG-U133A and B arrays, respectively. Microarrays were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from a multiple sclerosis patient treated with IFN-beta
Data processing The raw probe-level signals were converted to expression values using the MAS5.0 algorithm. Accordingly, probeset specific detection calls (Absent/Present) and changes with respect to baseline (Increase/Decrease/NoChange) were ascertained.
 
Submission date Sep 29, 2010
Last update date May 31, 2011
Contact name Robert Goertsches
E-mail(s) [email protected]
Organization name University
Department Neurology
Lab Neuroimmunology
Street address Gehlsheimer Strasse 20
City Rostock
ZIP/Postal code 18047
Country Germany
 
Platform ID GPL97
Series (1)
GSE24427 Expression data of multiple sclerosis patients receiving subcutaneous Interferon-beta-1b therapy [U133 A and B]

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
Change

Data table
ID_REF VALUE ABS_CALL Change
226203_at 682.1 P MD
229223_at 215.1 A NC
238474_at 32.2 A NC
223316_at 116.8 A NC
230438_at 235.2 A NC
236445_at 35.5 A NC
235682_s_at 13.3 A NC
231429_at 98.8 A NC
227905_s_at 650.4 P NC
236336_at 8.6 A NC
239465_at 140.7 A NC
226350_at 731.5 P NC
239217_x_at 253.5 A NC
229370_at 687.9 A NC
225212_at 1331.7 P NC
227341_at 30.3 A NC
230248_x_at 39.4 A NC
235454_at 21.1 A NC
230496_at 136.1 A NC
229279_at 66 A NC

Total number of rows: 22645

Table truncated, full table size 463 Kbytes.




Supplementary file Size Download File type/resource
GSM601879.CEL.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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