WBPaper00025032:PAL-1_target_genes

Clustering, correlation to known target genes and ANOVA were used to score the PAL-1 target potential of each gene. Potential PAL-1 target genes.

WBPaper00056034:pals-25(jy9)_downregulated

Differential expression analysis was performed in RStudio (v1.1.453) using R (v3.50) and Bioconductor (v3.7) packages. As outlined in the RNAseq123 vignette, data was imported, filtered and normalized using edgeR, and linear modeling and differential expression analysis was performed using limma. An FDR cutoff of <0.01 was used to define differentially expressed genes; no fold-change criteria was used. Transcripts that showed significantly decreased expression in pals-22(jy3)pals-25(jy9) comparing to in pals-22(jy3) at L4 larva stage.

WBPaper00056034:pals-25(jy9)_upregulated

Differential expression analysis was performed in RStudio (v1.1.453) using R (v3.50) and Bioconductor (v3.7) packages. As outlined in the RNAseq123 vignette, data was imported, filtered and normalized using edgeR, and linear modeling and differential expression analysis was performed using limma. An FDR cutoff of <0.01 was used to define differentially expressed genes; no fold-change criteria was used. Transcripts that showed significantly increased expression in pals-22(jy3)pals-25(jy9) comparing to in pals-22(jy3) at L4 larva stage.

WBPaper00064532:pals-25(jy111)_downregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly decreased expression in pals-25(jy111) comparing to in N2 animals.

WBPaper00064532:pals-25(icb98)_downregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly decreased expression in pals-25(icb98) comparing to in N2 animals.

WBPaper00064532:pals-25(icb98)_upregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly increased expression in pals-25(icb98) comparing to in N2 animals.

WBPaper00064532:pals-22(jy3)_downregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly decreased expression in pals-22(jy3) comparing to in N2 animals.

WBPaper00064532:pals-25(jy111)_upregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly increased expression in pals-25(jy111) comparing to in N2 animals.

WBPaper00064532:pals-22(jy3)_upregulated

limma-voom, fold change > 2, FDR < 0.05 Transcripts that showed significantly increased expression in pals-22(jy3) comparing to in N2 animals.

WBPaper00065984:pals-17(syb3980)_downregulated

Differential expression analyses were performed using limma-voom in Galaxy, adj p <= 0.05, logFC > 2 Transcripts that showed significantly decreased expression in pals-17(syb3980) comparing to in N2 animals at young adult stage.