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Immunome Research

, 6:5

First Online: 21 September 2010Received: 07 September 2010Accepted: 21 September 2010


BackgroundInnate immunity is the first line of defence offered by host cells to infections. Macrophage cells involved in innate immunity are stimulated by lipopolysaccharide LPS, found on bacterial cell surface, to express a complex array of gene products. Persistent LPS stimulation makes a macrophage tolerant to LPS with down regulation of inflammatory genes -pro-inflammatory- while continually expressing genes to fight the bacterial infection -antibacterial-. Interactions of transcription factors TF at their cognate TF binding sites TFBS on the expressed genes are important in transcriptional regulatory networks that control these pro-inflammatory and antibacterial expression paradigms involved in LPS stimulation.

ResultsWe used differential expression patterns in a public domain microarray data set from LPS-stimulated macrophages to identify 228 pro-inflammatory and 18 antibacterial genes. Employing three different motif search tools, we predicted respectively four and one statistically significant TF-TFBS interactions from the pro-inflammatory and antibacterial gene sets. The biological literature was utilized to identify target genes for the four pro-inflammatory profile TFs predicted from the three tools, and 18 of these target genes were observed to follow the pro-inflammatory expression pattern in the original microarray data.

ConclusionsOur analysis distinguished pro-inflammatory vs. antibacterial transcriptomic signatures that classified their respective gene expression patterns and the corresponding TF-TFBS interactions in LPS-stimulated macrophages. By doing so, this study has attempted to characterize the temporal differences in gene expression associated with LPS tolerance, a major immune phenomenon implicated in various pathological disorders.

Electronic supplementary materialThe online version of this article doi:10.1186-1745-7580-6-5 contains supplementary material, which is available to authorized users.

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Autor: Rahul K Kollipara - Narayanan B Perumal


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