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Sample GSM1332225 Query DataSets for GSM1332225
Status Public on Feb 21, 2014
Title Synovial tissue from rheumatoid arthritis joint 5 (RA_5)
Sample type RNA
Source name synovial tissue from rheumatoid arthritis joint
Organism Homo sapiens
Characteristics disease state: rheumatoid arthritis
tissue: synovial tissue isolated from joint
Treatment protocol tissues were collected from joint replacement surgery in OA patients and synovecomy surgery in RA patients, normal synovium was collected early post mortem from macroscopically normal knee joints
Growth protocol tissues were immediately frozen in liquid nitrogen for subsequent RNA-extraction
Extracted molecule total RNA
Extraction protocol RNA was collected by using the RNeasy mini kit (Qiagen)
Label biotin
Label protocol 3-5 µg of total RNA was amplified and labelled using the GeneChip® one-cycle target labelling and control reagents (Affymetrix)
Hybridization protocol 50µg/ml of labeled cRNA was hybridized at 45°C for 16h using the Affymetrix GeneChip hybridization oven. Washing and staining was performed on the Affymetrix Fluidics 450 using the EukGE-WS2v4 protocol.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
Description Gene expression data of synovial tissue isolated from rheumatoid arthritis joint number 5, labelled as RA_5
Data processing GCOS
Submission date Feb 21, 2014
Last update date Feb 21, 2014
Contact name Thomas Häupl
Phone +49 30 450513293
Organization name Charité
Department Rheumatology
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
Platform ID GPL96
Series (1)
GSE55235 Identification of rheumatoid arthritis and osteoarthritis patients by transcriptome-based rule set generation

Data table header descriptions
VALUE MAS 5.0 signal

Data table
AFFX-BioB-5_at 108.5 P 0.01667
AFFX-BioB-M_at 83.7 P 0.012112
AFFX-BioB-3_at 39.7 A 0.195266
AFFX-BioC-5_at 226.2 P 0.000857
AFFX-BioC-3_at 167.1 P 0.001796
AFFX-BioDn-5_at 155.5 P 0.002137
AFFX-BioDn-3_at 1279.9 P 0.000662
AFFX-CreX-5_at 2147.3 P 0.000044
AFFX-CreX-3_at 3481.1 P 0.000044
AFFX-DapX-5_at 1.7 A 0.672921
AFFX-DapX-M_at 3 A 0.641391
AFFX-DapX-3_at 1.6 A 0.953518
AFFX-LysX-5_at 3.3 A 0.804734
AFFX-LysX-M_at 5.6 A 0.749204
AFFX-LysX-3_at 6.4 A 0.340661
AFFX-PheX-5_at 1.6 A 0.963431
AFFX-PheX-M_at 1.7 A 0.883887
AFFX-PheX-3_at 7.7 A 0.724854
AFFX-ThrX-5_at 2.8 A 0.910522
AFFX-ThrX-M_at 3.3 A 0.883887

Total number of rows: 22283

Table truncated, full table size 582 Kbytes.

Supplementary file Size Download File type/resource
GSM1332225_RA_5_Syn_133A.cel.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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