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Status |
Public on Mar 01, 2015 |
Title |
Animal # 18 |
Sample type |
RNA |
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Source name |
Tarsal joint with clinical score 3 arthritis in 0-3 days
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Organism |
Mus musculus |
Characteristics |
strain: DBA/1JBom tissue: Whole tarsal joint
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Treatment protocol |
Arthritis was induced in male DBA/1JBom mice by intradermal injection of 100 µl chicken collagen type II (CII) (2mg/ml) (Sigma) in Complete Freunds Adjuvans (CFA) (0,5mg/ml) (Sigma) on day 1 and boosted on day 21 with CII in Incomplete Freunds Adjuvans (IFA)(Sigma). The control group was not induced.
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Extracted molecule |
total RNA |
Extraction protocol |
mirVanaTM miRNA isolation kit (Ambion, Denmark) according to the manufacturers´ instructions
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Label |
Biotin
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Label protocol |
Labelled using the Pico amplification kit (Nugen, San Carlos, USA), according to the manufacturers´ instructions
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Hybridization protocol |
The labelled samples were hybridized to the Mouse Gene 1.0 ST GeneChip array (Affymetrix, Santa Clara, CA, USA). The arrays were washed and stained with phycoerytrin-conjugated streptavidin (SAPE) using the Affymetrix Fluidics Station® 450
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Scan protocol |
The arrays were scanned in the Affymetrix GeneArray® 3000 scanner
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Data processing |
Arrays were normalized using standard RMA background correction and quantile normalization using the 'affy' package from bioconductor in R version 2.15. Significance of singular genes was assessed using an ANOVA approach across the different groups, and adjusted for multiple testing by estimating false discovery rates (FDR).
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Submission date |
Sep 05, 2014 |
Last update date |
Mar 01, 2015 |
Contact name |
Thomas Litman |
E-mail(s) |
tlitman@hotmail.com
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Phone |
4541851753
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Organization name |
University of Copenhagen
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Department |
ISIM
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Street address |
Blegdamsvej 3C
|
City |
Copenhagen N |
State/province |
Outside the US or Canada |
ZIP/Postal code |
2200 |
Country |
Denmark |
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Platform ID |
GPL6246 |
Series (1) |
GSE61140 |
Expression data from mouse arthritis tarsal joints |
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