- WBPaper00064637:cox-5B(RNAi)_upregulated
LimmaVoom. The genes with a BenjaminiHochbergadjusted P value < 0.05 were defined as statistically significant. Genes whose expressions were significantly upregulated with log2FC > 0.393.
Transcripts that showed significantly increased expression in cco-1/cox-5B(RNAi) animals comparings to animals injected with vector control.
- WBPaper00045294:0.1uM_TBBP_downregulated
Differentially expressed genes (DEGs) were identified with a random variance t test and a significance analysis of microarrays (SAM) test. Genes were considered statistically significant if their p value was less than 0.05, the false discovery rate less than 0.3 and the fold change compared to control at least <= 0.67 or >= 1.5.
Genes that showed decreased expression after 0.1uM TBBP treatment comparing with control.
- WBPaper00038118:stress_upregulated_N2
Audic-Claverie test of statistical significance using normalized read frequencies (i.e. Normalized number of reads per gene = number of reads mapped to a gene * the read length (36 bases)/the gene length/total number of reads in the library) of commonly identified genes. Genes that had p-values less than 0.01 and log2 expression level ratios greater than 0.7 (Minimum of ~1.5 difference) for every comparison were selected as differentially expressed.
Genes that were significantly up regulated in stressed N2 relative to unstressed N2.
- WBPaper00045401:N.parisii_16h_upregulated
Differentially expressed transcripts were identified using the edgeR Bioconductor package (Empirical analysis of digital gene expression data in R, v 3.0.8). FDR cutoff was set to < 0.05, which yielded lists of genes with > 4-fold difference in expression.
Genes that showed significantly increased expression 16 hours after infection by Nematocida parisii in fer-15(b26); fem-1(hc17), according to RNAseq.
- WBPaper00045401:N.parisii_8h_downregulated
Differentially expressed transcripts were identified using the edgeR Bioconductor package (Empirical analysis of digital gene expression data in R, v 3.0.8). FDR cutoff was set to < 0.05, which yielded lists of genes with > 4-fold difference in expression.
Genes that showed significantly decreased expression 8 hours after infection by Nematocida parisii in fer-15(b26); fem-1(hc17), according to RNAseq.
- WBPaper00045401:N.parisii_64h_upregulated
Differentially expressed transcripts were identified using the edgeR Bioconductor package (Empirical analysis of digital gene expression data in R, v 3.0.8). FDR cutoff was set to < 0.05, which yielded lists of genes with > 4-fold difference in expression.
Genes that showed significantly increased expression 64 hours after infection by Nematocida parisii in fer-15(b26); fem-1(hc17), according to RNAseq.