Systems biology approach for mapping the response of human urothelial cells to infection by Enterococcus faecalis

Background: To better understand the response of urinary epithelial (urothelial) cells to Enterococcus faecalis, a uropathogen that exhibits resistance to multiple antibiotics, a genome-wide scan of gene expression was obtained as a time series from urothelial cells growing as a layered 3-dimensional culture similar to normal urothelium. We herein describe a novel means of analysis that is based on deconvolution of gene variability into technical and biological components. Results: Analysis of the expression of 21,521 genes from 30 minutes to 10 hours post infection, showed 9553 genes were expressed 3 standard deviations (SD) above the system zero-point noise in at least 1 time point. The asymmetric distribution of relative variances of the expressed genes was deconvoluted into technical variation (with a 6.5% relative SD) and biological variation components (>3 SD above the mode technical variability). These 1409 hypervariable (HV) genes encapsulated the effect of infection on gen...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Mikhail G. Dozmorov, Kimberly D. Kyker, Ricardo Saban, Nathan Shankar, Arto S. Baghdayan, Michael Centola, Robert E. Hurst
• Keywords: BMCBI 2007, Gene Expression, Orchestrated Response, Time Points