Common features and interesting differences in transcriptional responses to secretion stress in the fungi and -0

Copyright information:Taken from "Common features and interesting differences in transcriptional responses to secretion stress in the fungi and "BMC Genomics 2006;7():32-32.Published online 22 Feb 2006PMCID:PMC1397821.Copyright © 2006 Arvas et al; licensee BioMed Central Ltd.rom 174 different stress conditions were collected from published articles. The expression level values of individual genes are shown in or and the median of the gene group in and the standard deviation of the whole experiment in . "oreUPR", genes showing significant up regulation in "" experiment set against both the "" and "experiment sets. "Travers UPR", genes defined as UPR genes and genes defined as UPR model genes in by [2]. "UPR Dependent Up", genes showing significant up regulation only in "" set against "" set. "UPR Dependent Down", genes showing significant down regulation only in "" against "" set. "UPR Independent Up", genes showing significant up regulation only in "" against "" set. "UPR Independent Down", genes showing significant down regulation only in "" against "" set. The stress conditions were divided in sets as follows: IRE1 and HAC1 deletion strains treated with DTT or tunicamycin, used as UPR dependent reference set in this study [2, 3]; reference set, used as UPR independent reference in this study [17, 18]; cultures treated with DTT or tunicamycin or recombinant strains producing a secreted heterologous protein, used as UPR conditions in this study [2, 3, 17-19, 69]; DTT treatment, 4 h time series [17]; Cdtreatment, 2 h time series and met4 deletion [48]; strains deleted in cell wall genes [49]; . methyl methanesulfonate, 3-aminotriazole and amino acid depletion treatments and GCN4 constitutive and GCN4 deletion strains [35]; 1 h time series after heat shock from 25°C to 37°C, [17]; 1, 5 h time series after temperature shift from 37°C to 25°C, [17]; 1, 5 h time series after mild heat shock of 29°C to 33°C [17]; . mild heat shock with different osmolarities, like previous but with sorbitol treatments [17]; different heat shocks [17]; 2 h time series after hydrogen peroxide treatment [17]; 2 h time series after menadione treatment [17]; 1, 5 h time series after diamide treatment [17]; 2 h time series after hyper-osmotic shock with sorbitol [17]; 1 h time series after hypo-osmotic shock with sorbitol [17]; . 6 h time series after amino acid and adenine depletion [17]; . 3 d time series after nitrogen depletion [17]; 13 d time series of growth on YPD at 25°C [17];