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Sample GSM1332215 Query DataSets for GSM1332215
Status Public on Feb 21, 2014
Title Synovial tissue from osteoarthritic joint 5 (OA_5)
Sample type RNA
Source name synovial tissue from osteoarthritic joint
Organism Homo sapiens
Characteristics disease state: synovial tissue isolated from osteoarthritic joint
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 osteoarthritic joint number 5, labelled as OA_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 181.3 P 0.004017
AFFX-BioB-M_at 254.1 P 0.000127
AFFX-BioB-3_at 119.8 P 0.000972
AFFX-BioC-5_at 394.3 P 0.000258
AFFX-BioC-3_at 255.1 P 0.000127
AFFX-BioDn-5_at 409.5 P 0.000066
AFFX-BioDn-3_at 3008.4 P 0.000095
AFFX-CreX-5_at 4326.3 P 0.000044
AFFX-CreX-3_at 6486.1 P 0.000044
AFFX-DapX-5_at 5.8 A 0.60308
AFFX-DapX-M_at 17.4 A 0.09209
AFFX-DapX-3_at 1.6 A 0.995516
AFFX-LysX-5_at 0.7 A 0.949771
AFFX-LysX-M_at 5.6 A 0.749204
AFFX-LysX-3_at 3.9 A 0.455413
AFFX-PheX-5_at 1.9 A 0.868639
AFFX-PheX-M_at 3.8 A 0.804734
AFFX-PheX-3_at 24.7 A 0.544587
AFFX-ThrX-5_at 3.8 A 0.945787
AFFX-ThrX-M_at 5.6 A 0.672921

Total number of rows: 22283

Table truncated, full table size 582 Kbytes.

Supplementary file Size Download File type/resource
GSM1332215_OA_5_Syn_133A.cel.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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