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Sample GSM1332216 Query DataSets for GSM1332216
Status Public on Feb 21, 2014
Title Synovial tissue from osteoarthritic joint 6 (OA_6)
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 6, labelled as OA_6
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 172.7 P 0.023929
AFFX-BioB-M_at 269.4 P 0.000754
AFFX-BioB-3_at 129.8 P 0.00141
AFFX-BioC-5_at 418.5 P 0.000446
AFFX-BioC-3_at 283.6 P 0.000225
AFFX-BioDn-5_at 358.5 P 0.00034
AFFX-BioDn-3_at 2776.8 P 0.000147
AFFX-CreX-5_at 3746.3 P 0.000066
AFFX-CreX-3_at 6152 P 0.000044
AFFX-DapX-5_at 12.9 A 0.455413
AFFX-DapX-M_at 18.2 M 0.063107
AFFX-DapX-3_at 2.9 A 0.971543
AFFX-LysX-5_at 1.1 A 0.804734
AFFX-LysX-M_at 17.1 A 0.52976
AFFX-LysX-3_at 12.4 A 0.340661
AFFX-PheX-5_at 2.2 A 0.753049
AFFX-PheX-M_at 3.2 A 0.814869
AFFX-PheX-3_at 9.4 A 0.645547
AFFX-ThrX-5_at 3.3 A 0.921998
AFFX-ThrX-M_at 7.5 A 0.804734

Total number of rows: 22283

Table truncated, full table size 583 Kbytes.

Supplementary file Size Download File type/resource
GSM1332216_OA_6_Syn_133A.cel.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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