- WBPaper00038304:octr-1_regulated
Microarray data were subjected to the robust multichip averaging algorithm using GeneSpring GX software (Agilent Technologies, Santa Clara, CA). Analysis of variance t test and fold-change calculations were also performed using GeneSpring GX software. Probability calculations of enrichment were performed using the hypergeometric probability test (http://elegans.uky.edu/MA/progs/overlap_stats.html) to calculate the statistical significance of the overlap of gene groups.
Genes regulated by octr-1(ok371) after infected with P. aeruginosa PA14 for 4 hours at 25 centigrade.
- WBPaper00040185:nhr-23(RNAi)_downregulated
Microarray chip data was collected and analyzed by both Affymetrix MAS 5.0 suite software (>= 1.6-fold change in mRNA expression) and Robust Multichip Average (RMA) (>= 1.2-fold change in mRNA expression) as part of the Partek genomics suite software package, all with a p-value less than or equal to 0.05. Normalized data was further analyzed and visualized with Genespring software (Agilent Technologies, Santa Clara, CA).
Genes that showed decreased expression in nhr-23 RNAi experiment.
- WBPaper00040990:PA14_downregulated
Gene expression profiles obtained with microarrays were analyzed by a multi-class t-test using Significance Analysis of Microarrays (SAM), implemented as part of the TMEV software package. Based on T statistics the test retrieves genes with a T value above a cutoff score estimated to give the desired false discovery rate (selected to be 10%).
Genes with expression level repressed by bacteria strain PA14.
- WBPaper00040990:PA14_upregulated
Gene expression profiles obtained with microarrays were analyzed by a multi-class t-test using Significance Analysis of Microarrays (SAM), implemented as part of the TMEV software package. Based on T statistics the test retrieves genes with a T value above a cutoff score estimated to give the desired false discovery rate (selected to be 10%).
Genes with expression level induced by bacteria strain PA14.