WBPaper00057068:ints-4(RNAi)_downregulated_Cadmium

DESeq2, v1.12.0, fold change > 2, FDR < 0.05 Transcripts that showed significantly decreased expression in ints-4(RNAi) animals treated with 300uM CdCl2 from L1 to late L3 larva stage, comparing to control RNAi animals with the same Cadmium treatment.

WBPaper00056275:P.aeruginosa_downregulated_atf-7(qd22qd130)_dependent

DESeq2 Transcripts that showed significantly decreased expression after N2 L4 animals were infected by P. aeruginosa (PA14) bacteria for 4 hours at 25C, but atf-7(qd22qd130) animals showed reduced fold change after they went through the same infection.

WBPaper00057068:ints-4(RNAi)_upregulated_Cadmium

DESeq2, v1.12.0, fold change > 2, FDR < 0.05 Transcripts that showed significantly increased expression in ints-4(RNAi) animals treated with 300uM CdCl2 from L1 to late L3 larva stage, comparing to control RNAi animals with the same Cadmium treatment.

WBPaper00056275:P.aeruginosa_upregulated_atf-7(qd22qd130)_dependent

DESeq2 Transcripts that showed significantly increased expression after N2 L4 animals were infected by P. aeruginosa (PA14) bacteria for 4 hours at 25C, but atf-7(qd22qd130) animals showed reduced fold change after they went through the same infection.

WBPaper00056275:P.aeruginosa_upregulated_pmk-1(km25)_dependent

DESeq2 Transcripts that showed significantly increased expression after N2 L4 animals were infected by P. aeruginosa (PA14) bacteria for 4 hours at 25C, but pmk-1(km25) animals showed reduced fold change after they went through the same infection.

WBPaper00056275:P.aeruginosa_downregulated_pmk-1(km25)_dependent

DESeq2 Transcripts that showed significantly decreased expression after N2 L4 animals were infected by P. aeruginosa (PA14) bacteria for 4 hours at 25C, but pmk-1(km25) animals showed reduced fold change after they went through the same infection.

WBPaper00057068:numr-1(RNAi)_downregulated_Cadmium

DESeq2, v1.12.0, fold change > 2, FDR < 0.05 Transcripts that showed significantly decreased expression in numr-1/2(RNAi) animals treated with 300uM CdCl2 from L1 to late L3 larva stage, comparing to control RNAi animals with the same Cadmium treatment.

WBPaper00057068:numr-1(RNAi)_upregulated_Cadmium

DESeq2, v1.12.0, fold change > 2, FDR < 0.05 Transcripts that showed significantly increased expression in numr-1/2(RNAi) animals treated with 300uM CdCl2 from L1 to late L3 larva stage, comparing to control RNAi animals with the same Cadmium treatment.

WBPaper00040221:DAF-12_target_ALF9

Affymetrix TAS software that computed for each probe estimates of fold enrichment (in linear scale) over hybridization with input DNA. At the same time, TAS calculated for each probe a p-value by applying a Wilcoxon signed rank test. A threshold of 2.5 was selected, which corresponds to probe intensities approximately 2.5 times stronger on the ChIP array than on the Input array. Additional TAS threshold parameters were MinRun=180 bp, MaxGap=300 bp. TAS analysis showed that the selected threshold of 2.5 corresponds approximately to a p-value of 0.01. Potental DAF-12 target genes identified by ChIP-chip analysis performed on strain ALF9 [daf-12

WBPaper00040221:DAF-12_target_ALF4

Affymetrix TAS software that computed for each probe estimates of fold enrichment (in linear scale) over hybridization with input DNA. At the same time, TAS calculated for each probe a p-value by applying a Wilcoxon signed rank test. A threshold of 2.5 was selected, which corresponds to probe intensities approximately 2.5 times stronger on the ChIP array than on the Input array. Additional TAS threshold parameters were MinRun=180 bp, MaxGap=300 bp. TAS analysis showed that the selected threshold of 2.5 corresponds approximately to a p-value of 0.01. Potental DAF-12 target genes identified by ChIP-chip analysis performed on strain ALF4 [daf-12