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Series GSE52992 Query DataSets for GSE52992
Status Public on Dec 04, 2014
Title Rsk2 controls synovial fibroblast hyperplasia and the course of arthritis.
Organism Mus musculus
Experiment type Expression profiling by array
Summary To understand differences in the pathogenesis of synovial hyperplasia during TNF-induced arthritis, we compared the global gene expression of hTNFtg and hTNFtg;Rsk2-/y primary synovial fibroblasts.
 
Overall design Murine fibroblast-like synoviocytes (FLS) were isolated from the hind paws of hTNFtg and hTNFtg;Rsk2-/y (background: C57BL/6) 6-9 week-old mice via collagenase digestion. The cells of two mice were pooled and cultivated for at least 3 passages before usage. For characterization, the cells were tested for the surface expression of CD90.2 and VCAM1 by flow cytometric analysis, whereas CD11b as a monocytic marker had to be absent. Total RNA was extracted using the RNeasy Mini kit (Qiagen). The integrity and amount of isolated RNA was assessed for each sample using an Agilent 2100 Bioanalyzer (Agilent, Waldbronn, Germany) and a NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE). Double-stranded complementary RNA was synthesized from 1 µg total RNA using Message AmpII Biotin (Ambion, USA). Fifteen micrograms of fragmented cRNA of each sample were hybridized to six MG_U430_2 GeneChips (Affymetrix). Hybridization was performed in a Hybridization Oven 640, and chips were washed and stained in the Fluidics Station 450 (both Affymetrix). Finally, the arrays were scanned with a GeneChip Scanner 3000 using the GCOS software, version 1.4, both Affymetrix. All relevant GCOS data of quality checked microarrays were analyzed with High Performance Chip Data Analysis (HPCDA, unpublished), using the BioRetis database (www.bioretis-analysis.de), as described and validated previously.
 
Contributor(s) Derer A, Böhm C, Grötsch B, Grün JR, Grützkau A, Stock M, Neubert K, Böhm S, Sehnert B, Schett G, Hueber AJ, David J
Citation(s) 25414238, 19265543
Submission date Dec 04, 2013
Last update date Feb 11, 2019
Contact name Pawel Durek
E-mail(s) pawel.durek@drfz.de
Organization name Deutsches Rheuma-Forschungszentrum
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (6)
GSM1279900 Gene expression of murine fibroblast-like synoviocytes Grp1_C57BL6_1_FLS_TNFtg_plus_RSK2-KO
GSM1279901 Gene expression of murine fibroblast-like synoviocytes Grp1_C57BL6_2_FLS_TNFtg_plus_RSK2-KO
GSM1279902 Gene expression of murine fibroblast-like synoviocytes Grp1_C57BL6_3_FLS_TNFtg_plus_RSK2-KO
Relations
BioProject PRJNA230637

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52992_RAW.tar 22.6 Mb (http)(custom) TAR (of CEL, CHP)
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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