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Sample GSM1332218 Query DataSets for GSM1332218
Status Public on Feb 21, 2014
Title Synovial tissue from osteoarthritic joint 8 (OA_8)
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 8, labelled as OA_8
Data processing GCOS
 
Submission date Feb 21, 2014
Last update date Feb 21, 2014
Contact name Thomas Häupl
E-mail(s) thomas.haeupl@charite.de
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
ID_REF
VALUE MAS 5.0 signal
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 119.4 P 0.023929
AFFX-BioB-M_at 112.2 P 0.00762
AFFX-BioB-3_at 27.1 A 0.147939
AFFX-BioC-5_at 220 P 0.000662
AFFX-BioC-3_at 167.5 P 0.000297
AFFX-BioDn-5_at 159.3 P 0.000484
AFFX-BioDn-3_at 1498.9 P 0.000509
AFFX-CreX-5_at 2458.1 P 0.000044
AFFX-CreX-3_at 3228.8 P 0.000044
AFFX-DapX-5_at 1.1 A 0.822665
AFFX-DapX-M_at 3.1 A 0.526043
AFFX-DapX-3_at 1.9 A 0.960339
AFFX-LysX-5_at 1 A 0.814869
AFFX-LysX-M_at 3.4 A 0.783476
AFFX-LysX-3_at 0.8 A 0.548046
AFFX-PheX-5_at 1.1 A 0.949771
AFFX-PheX-M_at 0.5 A 0.976071
AFFX-PheX-3_at 18.3 A 0.58862
AFFX-ThrX-5_at 3.9 A 0.941556
AFFX-ThrX-M_at 1.6 A 0.9273

Total number of rows: 22283

Table truncated, full table size 581 Kbytes.




Supplementary file Size Download File type/resource
GSM1332218_OA_8_Syn_133A.cel.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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