E-MTAB-1475 - Transcription profiling by array of antigen-stimulated TCR transgenic murine splenocytes that were cultured in the presence of cytokines

Status
Released on 1 March 2013, last updated on 3 May 2014
Organism
Mus musculus
Samples (40)
Array (1)
Protocols (6)
Description
Helper T cells can adopt a number of different phenotypes. We performed microarray-assisted mRNA profiling on antigen-stimulated, TCR transgenic murine splenocytes that were cultured in the presence of cytokines. Transcriptome snapshots of Th cells differentiating into Th1 and Th2 phenotypes were obtained at various time-points. Principle component analysis shows that time since activation and Th skewing are the largest sources of variance (i.e., the largest contributing factors) in our profiling experiments. Divergence between the Th1 and Th2 phenotypes is established early and does not increase in terms of number of differential genes from day 1 to day 4 after stimulation. Notwithstanding the lack of further divergence between the Th1 and Th2 lineages, we show that gene expression is best described by a turnover rather than a core response model, although we find evidence for both. We identify clusters of skewed genes associated with early-persistent (core response) and late (turnover) Th1 and Th2 gene expression. In addition to the classical Th genes, members of the Batf transcription factor family are differentially expressed in particular helper phenotypes, suggesting an important role for this family in helper T-cell phenotype differentiation.
Experiment types
transcription profiling by array, co-expression, development or differentiation, ex vivo, growth condition design, time series
Contact
Citation
European Journal of Immunology. Henk-Jan van den Ham, Leon de Waal, Fatiha Zaaraoui-Boutahar, Maarten Bijl, Wilfred F. J. van IJcken, Albert D.M.E. Osterhaus, Rob J. de Boer, Arno C. Andeweg.
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-MTAB-1475.idf.txt
Sample and data relationshipE-MTAB-1475.sdrf.txt
Raw data (1)E-MTAB-1475.raw.1.zip
Processed data (1)E-MTAB-1475.processed.1.zip
Array designA-AFFY-45.adf.txt
Links