- WBPaper00057083:daf-2(e1370)rsks-1(ok1255)_post-transcriptional_upregulated
edgeR
Genes that showed significantly incresed level of post-transcriptional processing in daf-2(e1370)rsks-1(ok1255) vs N2 animals. Diferential Polysome Asso-ciation Ratio (DPAR) = log2 fold changes of the ratio (daf-2 rsks-1 polysomal associated mRNA / daf-2 rsks-1 total mRNA) / (N2 polysomal associated mRNA / N2 total mRNA).
- WBPaper00057083:daf-2(e1370)rsks-1(ok1255)_post-transcriptional_downregulated
edgeR
Genes that showed significantly decresed level of post-transcriptional processing in daf-2(e1370)rsks-1(ok1255) vs N2 animals. Diferential Polysome Asso-ciation Ratio (DPAR) = log2 fold changes of the ratio (daf-2 rsks-1 polysomal associated mRNA / daf-2 rsks-1 total mRNA) / (N2 polysomal associated mRNA / N2 total mRNA).
- WBPaper00044638:daf-2(e1370)rsks-1(ok1255)_regulated
A linear model was estimated for each gene to determine if the expression is significantly amplified in the daf-2 rsks-1 double mutant than in the daf-2 and rsks-1 single mutants. An empirical Bayes procedure was performed through the limma package to calculate a moderated t-statistic for each contrast of interest. The p-values were adjusted to control the false discovery rate (FDR) using the Benjamin-Hochberg (BH) procedure.
Genes that are differentially expressed in daf-2(e1370) rsks-1(ok1255) to a greater extent than in daf-2 in a DAF-16-dependent manner.
- WBPaper00049290:rsks-1(sv31)_upregulated
Two statistical approached were used to calculate P values: (1) a moderated t-test implemented in the LIMMA BioConductor package (primary P value), and the Welch statistical test (secondary P value). The statistical significance criteria were defined as 1.8-fold difference in expression levels with P values less than or equal to 0.05.
Proteins that were significantly more abundant in Day-1 adult rsks-1(sv31) mutants compared to age-matched wild-type animals.
- WBPaper00049290:rsks-1(sv31)_downregulated
Two statistical approached were used to calculate P values: (1) a moderated t-test implemented in the LIMMA BioConductor package (primary P value), and the Welch statistical test (secondary P value). The statistical significance criteria were defined as 1.8-fold difference in expression levels with P values less than or equal to 0.05.
Proteins that were significantly less abundant in Day-1 adult rsks-1(sv31) mutants compared to age-matched wild-type animals.
- WBPaper00045217:prg-1_progressively_regulated
Genes with more than 2-fold change in expression level are considered differentially expressed.
Genes altered by more than 2-Fold in late versus early generation prg-1 mutants and prg-1; daf-2 mutants. Samples include prg-1(pk2290), prg-1(n4357), prg-1(tm872), prg-1(pk2290); daf-2(e1368), prg-1(pk2290); daf-2(e1370), prg-1(tm872); daf-2(e1370), prg-1(tm872); daf-2(m41).
- WBPaper00059609:malt-1_ilc-17.1_nfki-1_downregulated
Cufflinks (v2.2.1). q < 0.05.
Transcripts that showed significantly decreased expression in malt-1(db1194);npr-1(ad609) animals, in npr-1(ad609) ilc-17.1(tm5218) animals, and in npr-1(ad609) nfki-1(db1198) animals, comparing to the wild type control npr-1(ad609).
- WBPaper00059609:malt-1_ilc-17.1_nfki-1_upregulated
Cufflinks (v2.2.1). q < 0.05.
Transcripts that showed significantly increased expression in malt-1(db1194);npr-1(ad609) animals, in npr-1(ad609) ilc-17.1(tm5218) animals, and in npr-1(ad609) nfki-1(db1198) animals, comparing to the wild type control npr-1(ad609).
- WBPaper00047132:skn-1(RNAi)_downregulated_glp-1(ts)-dependent
Fold change > 4.0 for glp-1(ts) regulated genes, and fold change < 0.67 for skn-1(RNAi) regulated genes.
Genes with < 0.67 fold decreased expression in skn-1(RNAi) animals comparing to in N2 control at 25 centigrade. Fold change = glp-1(ts) + skn-1 RNAi vs. glp-1(ts) + vector