- WBPaper00067267:HSF-1-depletion_88hr_upregulated
edgeR, fold change > 2, FDR < 0.05
Transcripts that showed significantly increased expression after 88 hours of degron-induced HSF-1 depletion starting from embryo stage. Auxin induced genes were eliminated from the list.
- WBPaper00067267:HSF-1-depletion_88hr_downregulated
edgeR, fold change > 2, FDR < 0.05
Transcripts that showed significantly decreased expression after 88 hours of degron-induced HSF-1 depletion starting from embryo stage. Auxin induced genes were eliminated from the list.
- WBPaper00067267:HSF-1-depletion_16hr_upregulated
edgeR, fold change > 2, FDR < 0.05
Transcripts that showed significantly increased expression after 16 hours of degron-induced HSF-1 depletion starting from young adult stage. Auxin induced genes were eliminated from the list.
- WBPaper00067267:HSF-1-depletion_16hr_downregulated
edgeR, fold change > 2, FDR < 0.05
Transcripts that showed significantly decreased expression after 16 hours of degron-induced HSF-1 depletion starting from young adult stage. Auxin induced genes were eliminated from the list.
- WBPaper00053254:hsp-90(RNAi)_upregulated_protein
rotein levels were obtained after comparing the isotope-tagged sample with the non-tagged sample. Averages of two experiments were calculated. A proteins was only included in the final list if several different peptides were quantified for it.
Proteins with increased levels in hsp-90(RNAi) nematodes at L4 larva stage.
- WBPaper00053254:hsp-90(RNAi)_downregulated_protein
rotein levels were obtained after comparing the isotope-tagged sample with the non-tagged sample. Averages of two experiments were calculated. A proteins was only included in the final list if several different peptides were quantified for it.
Proteins with decreased levels in hsp-90(RNAi) nematodes at L4 larva stage.
- WBPaper00041876:daf-10(m79)_upreglated
Linear normalization was carried out with the Acuity 4.0 software and significance analysis using the Cyber T-test program. Genes with a p value lower than 0.02 were considered significant. The significant gene list was compared to known gene lists using the hypergeometric probability.
Genes up-regulated in daf-10(m79) mutants versus wild-type animals.
- WBPaper00040821:Au-NP_regulated
Hierarchical clustering was performed in Partek to confirm that the samples match to the treatment groups. Analysis of variance (ANOVA) was used to partition the variance due to treatment from technical and biological noise. The list of differentially expressed genes was generated by identifying the genes showing fold change of more than 1.5 and less than -1.5 at p < 0.05 with and without multiple sample correction, False Discovery Rate (FDR). False discovery correction according to Benjamini and Hochberg produced a list of 37 significant transcripts. FDR was not applied when selecting differential expressed genes, because this approach can increase the type II error and result in elimination of the genes responsive to the treatment.
Genes with differeiential expression after exposed to Au-NP.