WBPaper00059194:klf-1(RNAi)_regulated

N.A. Genes which expression is changed in isp-1;ctb-1 mutant and is not affected by developmental klf-1 RNAi, but is brought to wild type levels by klf-1 RNAi in adulthood.

WBPaper00037849:sam-10(js94)_upregulated

Geometric mean=1.5 is used as a cutoff. Genes with increased expression in sam-10(js94) mutants, revealed by microarray analysis. Geometric mean=1.5 is used as a cutoff.

WBPaper00055060:flr-1(RNAi)_upregulated

N.A. Transcripts that showed significantly increased expression in flr-1(RNAi) comparing to in control RNAi animals. This is an incomplete list.

WBPaper00055060:flr-1(RNAi)_downregulated

N.A. Transcripts that showed significantly increased expression in flr-1(RNAi) comparing to in control RNAi animals. This is an incomplete list.

WBPaper00027722:Microbacterium_nematophilum_downregulated

A probe that is induced or repressed at least twofold in a replicate to was defined as changed. The set of probes that, across replicates marked as Present by MAS5.0, were both (1) changed in at least two replicates and (2) changed on average. The second criterion is redundant when all three replicates are changed, but helps control situations where one replicate is markedly different from the others. These probes have a false discovery rate (FDR) of ~5%. Genes down regulated by the virulent strain of Microbacterium nematophilum (CBX102).

WBPaper00027722:Microbacterium_nematophilum_upregulated

A probe that is induced or repressed at least twofold in a replicate to was defined as changed. The set of probes that, across replicates marked as Present by MAS5.0, were both (1) changed in at least two replicates and (2) changed on average. The second criterion is redundant when all three replicates are changed, but helps control situations where one replicate is markedly different from the others. These probes have a false discovery rate (FDR) of ~5%. Genes up regulated by the virulent strain of Microbacterium nematophilum (CBX102).

WBPaper00056284:ints-6(t1903)_upregulated

DESeq2 and edgeR. Transcripts that showed significantly increased expression in JCP294 ints-6(t1903) IV (ints-6 is also known as dic-1) comparing to in N2.

WBPaper00056284:ints-6(t1903)_downregulated

DESeq2 and edgeR. Transcripts that showed significantly decreased expression in JCP294 ints-6(t1903) IV (ints-6 is also known as dic-1) comparing to in N2.

WBPaper00042527:age_dependent_miRNA

Details available in Supplementary material of the paper. Diff Exp, is the approximate ratio of expression comparing Young to Old animals (11 day difference in age). The raw p-value is for the null hypothesis that the Diff exp Ratio = 1 (based on robust inference - see supplemental information) and the associated 95% CI of the ratio. miRNAs with age dependent abundance in wild type animals.

WBPaper00042165:let-7_upregulated

Paired t-test. Expression level change of more than 2 fold is the cut-off. Genes up-regulated more than 2-fold in let-7(n2853) compared to wild-type.