- WBPaper00045693:S.flexneri_upregulated
Authors used low stringency MASCOT search parameters.
Proteins that showed increased expression 24 hours after animals were infected by S. flexneri serotype 3b, based on 2D-DIGE and LC-MS proteomic analyisis.
- WBPaper00045693:S.flexneri_downregulated
Authors used low stringency MASCOT search parameters.
Proteins that showed decreased expression 24 hours after animals were infected by S. flexneri serotype 3b, based on 2D-DIGE and LC-MS proteomic analyisis.
- WBPaper00032454:IR_upregulated
To identify differentially expressed genes, gene expression intensity was compared using a moderated t-test and a Bayes smoothing approach developed for a low number of replicates.
Genes up-regulated following ionizing radiation (IR) treatment.
- WBPaper00032528:L3_depleted
To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.
Genes in the bottom 10% of expression level across the triplicate L3 samples. To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.
- WBPaper00032528:L3_enriched
To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.
Genes in the top 10% of expression level across the triplicate L3 samples. To generate the top10 and bottom10 gene sets, authors ranked all genes by mean expression array signal intensity across the three replicates, then took the top and bottom deciles (1,841 genes each) to represent genes with high and low expression.
- WBPaper00031097:unc-95(su33)_upregulated
Genes with differences corresponding to P-value < 0.01 in either the high- or the low-photomultiplier scans (Students t-test) in all replicates were considered to be significantly regulated.
Genes that showed more than 2 fold increase of expression in unc-95(su33) comparing with N2.
- WBPaper00043980:arsenic_upregulated
Authors used ANOVA to compute differentially expressed genes between experimental treatment groups and control using the log transformed normalized intensity values generated from application of the RMA algorithm. Authors used the FDR for multiple comparison correction. Genes were considered differentially expressed if they had a p-value <= 0.05 after correction.
Genes up-regulated (>4 times) in both high and low dose arsenic exposure.