Fig. 1
Systemic inflammation regulates BM gene clusters associated with immune system process and positive regulation of cytokine production. a Volcano plot for comparisons of BM cells isolated from LPS-treated (50 μg from 1:1 mixture of E. coli strain K12 and S. minnesota strain R595) and PBS-treated mice. Each gene is represented by a dot in the graph. The x-axis represents the log2 value of fold change, and the y-axis represents the t-statistic as log10 p value. Colored dots represent the genes that are regulated more or equal to 1.5 fold up (red, n = 326) or down (green, n = 86) with an adjusted p value not higher than 0.05. b GO analysis of regulated genes after LPS treatment. Enriched terms found related to regulated genes in biological processes (BP), operations, or sets of molecular events with a defined beginning and end and more than one distinct step. The z-score threshold of >1.96 resulted in 149 enriched GO terms for BP. Only enriched BP terms that include either 30 % or 15 differentially expressed genes are illustrated. c Heat map of differentially expressed genes predicted with the SignalP web server as cytokines or membrane proteins. After LPS treatment, 93 candidates are found to be upregulated and 23 to be downregulated. Genes are ordered in rows and samples in columns. The expression levels are coded as indicated in the color key. Shades of green and red refer to the differential expression levels as log2 fold values, as indicated in the color key