Microarray analysis of CD4+T cells in murine arthritis
Transcriptomics Dataset
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General Information
AccessionGSE7705
TitleMicroarray analysis of CD4+T cells in murine arthritis
DescriptionAlthough activated CD4+ T cell-driven overproduction of cytokines, especially TNF and IL1, is generally regarded as the major factor in the development of rheumatoid arthritis (RA), little is known about the precise role of CD4+ T cells in the initiation and progression of this disease. In this study, this issue was addressed using a time-course microarray analysis in a mouse model of RA, Il1rn deficient mice.No obvious cytokine gene expression changes reflecting T cell activation was observed in CD4+ T cells in the Il1rn deficient mice during the course of spontaneous arthritis. On the contrast, majority of dysregulated genes were those predominantly expressed in myeloid lineage cells, suggesting T cell reprogramming involvement in arthritis development. Distinct gene expression patterns were identified for different stages of disease, including downregulated expression of immunoglobulin heavy chain constant region genes and increased expression of inflammatory genes in the early phase, and downregulation of MHC class II genes in the late phase. The common changes occurred in both early and late phases included upregulation of Arl2bp and Mfap1, which are involved in the regulation of cytoskeletal dynamics. Keywords: Time course
Landing Pagehttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE7705
RepositoryGene Expression Omnibus
Tools used to analyze the dataset

Keyword
Dataset Accession

Enrichr
Published May 2016
A comprehensive gene set enrichment analysis web server 2016 update
7759
65
Characteristic Direction
Published March 2014
A geometrical multivariate approach to identify differentially expressed genes
26829
GeneMANIA
Published June 2010
Biological network integration for gene prioritization and predicting gene function
7435
L1000CDS2
Published August 2016
An ultra-fast LINCS L1000 Characteristic Direction signature search engine
7756
PAEA
Published November 2015
Enrichment analysis tool implementing the principal angle method
3879
Canned Analyses generated with the dataset

Dataset Accession
Tool Name
Direction
Geneset

Small molecules which mimic IL1RN KO
The L1000 database was queried in order to identify small molecule perturbations which mim...
Small molecules which reverse IL1RN KO
The L1000 database was queried in order to identify small molecule perturbations which rev...
Enrichment analysis of genes dysregulated in IL1RN KO
An enrichment analysis was performed on the top most dyresgulated genes determined by appl...
Interaction network and enrichment analysis of genes downregulated in IL1RN KO
The analysis explores the gene interaction network and pathway enrichment of the top 50 mo...
Interaction network and enrichment analysis of genes upregulated in IL1RN KO
The analysis explores the gene interaction network and pathway enrichment of the top 50 mo...
Enrichment analysis of genes downregulated in IL1RN KO
An enrichment analysis was performed on the top 500 most downregulated genes identified by...
Enrichment analysis of genes upregulated in IL1RN KO
An enrichment analysis was performed on the top 500 most upregulated genes identified by a...
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