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TNF-mediated gene expression in HUVEC

Microarray Platform: Affymetrix® GeneChip® Human Genome U133A array

Reference: Data available from Gene Expression Omnibus (GEO, GSE2639). GEO Summary: HUVEC were left untreated or stimulated for 5h with 2 ng/ml TNF. Comparsion of the gene profiles revealed TNF-mediated gene expression changes in HUVEC.

Analysis summary:
Gene expression in TNF treated Human Umbilical Vein Endothelial Cells (HUVEC) was compared to that in untreated HUVEC using the Affymetrix® GeneChip® Human Genome U133A array. Using filtering criteria of a 1.5 or greater fold-change in expression and a false discovery rate of less than 5%, 624 out of over 19,000 transcripts examined were differentially expressed. The expression of 335 transcripts was increased by TNF treatment, while 289 showed decreased expression. The Gene Ontology and KEGG pathway terms associated with these genes were examined to identify biological themes associated with each set of genes. These analyses identified distinct biological themes associated with each group of genes. The ontology term analysis showed that TNF treatment regulates the expression of genes involved in the immune response, cell cycle, apoptosis and cell adhesion in HUVEC. The analysis of KEGG pathway terms identified a significant over representation of genes involved in the Jak-Stat signaling pathway and cytokine-cytokine receptor interactions among the up-regulated genes and an over representation of cell cycle genes among the down-regulated genes.

Scientific analysis of the dataset:

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