- gene: PPA09862 [Browse genome (BioProject PRJNA12644)] [Search on AGR]
Pristionchus pacificus Is predicted to encode a protein with the following domains: Damage-control phosphatase ARMT1-like domain; Protein-glutamate O-methyltransferase; AF1104-like superfamily; and Damage-control phosphatase ARMT1-like, metal-binding domain. Is an ortholog of C. elegans F31D4.2.
- expression cluster: WBPaper00045473:PP_Germline_Conserved_Operon
Differential expression was calculated by empirical Bayes method using the eBayes function, and control of FDR was employed as the multiple testing correction. Authors used cutoff of absolute log2 fold change greater than or equal to 1.5 AND p_value less than or equal to 0.05 to call differentially expressed genes.
Germline expressed genes in P.pacificus are also significantly enriched in the annotated\/validated operons conserved across P.pacificus and C.elegans.
- expression cluster: WBPaper00041207:PP_dauer_down
The weight parameters were optimized based on MA-plots such that spike-in controls show their expected fold change values. lmFit function was used to fit a linear model to probe intensities across arrays, and differential expression was calculated by empirical Bayes method using the eBayes function. Control of FDR was employed as correction for multiple testing.
Pristionchus pacificus genes down regulated in the dauer versus dauer-exit worms.
- expression cluster: WBPaper00041207:PP_dauer_up
The weight parameters were optimized based on MA-plots such that spike-in controls show their expected fold change values. lmFit function was used to fit a linear model to probe intensities across arrays, and differential expression was calculated by empirical Bayes method using the eBayes function. Control of FDR was employed as correction for multiple testing.
Pristionchus pacificus genes up regulated in the dauer versus dauer-exit worms.
- expression cluster: WBPaper00041466:PP_S.marcescens_regulated
Differential expression was calculated by empirical Bayes method using the eBayes function, and control of FDR was employed as the multiple testing correction. Authors used cutoff of absolute log2 fold change greater than or equal to 1.5 AND p_value less than or equal to 0.05 to call differentially expressed genes.
Genes that showed differential expression in the comparison of germline-ablated animals fed on S. marcescens versus germline-ablated animals fed E. coli OP50.