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Sample GSM1332208 Query DataSets for GSM1332208
Status Public on Feb 21, 2014
Title Synovial tisssue from healthy joint 8 (ND_8)
Sample type RNA
 
Source name synovial tissue from healthy joint
Organism Homo sapiens
Characteristics disease state: healthy control
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 healthy joint number 8, labelled as ND_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 126.9 P 0.021902
AFFX-BioB-M_at 161.8 P 0.01667
AFFX-BioB-3_at 82.2 A 0.078002
AFFX-BioC-5_at 359.5 P 0.000754
AFFX-BioC-3_at 240 P 0.000258
AFFX-BioDn-5_at 212.7 P 0.000642
AFFX-BioDn-3_at 2015.1 P 0.00034
AFFX-CreX-5_at 3362.1 P 0.000044
AFFX-CreX-3_at 4783.8 P 0.000044
AFFX-DapX-5_at 3.1 A 0.60308
AFFX-DapX-M_at 15.9 A 0.451954
AFFX-DapX-3_at 5.1 A 0.876428
AFFX-LysX-5_at 2.8 A 0.860518
AFFX-LysX-M_at 6.6 A 0.814869
AFFX-LysX-3_at 7.3 A 0.425962
AFFX-PheX-5_at 1.9 A 0.916408
AFFX-PheX-M_at 4 A 0.760937
AFFX-PheX-3_at 14.1 A 0.672921
AFFX-ThrX-5_at 8 A 0.883887
AFFX-ThrX-M_at 2.6 A 0.941556

Total number of rows: 22283

Table truncated, full table size 582 Kbytes.




Supplementary file Size Download File type/resource
GSM1332208_ND_8_Syn_133A.cel.gz 3.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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