- WBPaper00035211:age-1_vs_N2_downregulated
SAM
Genes that showed decreased expression in age-1 (mg44, m333) comparing to N2DRM. 253 (92%) at FDR <3%, 341 (89%) at FDR <5.5%, with expression in age-1(mg44, m333) < N2DRM
- WBPaper00035211:age-1_vs_N2_upregulated
SAM
Genes that showed increased expression in age-1 (mg44, m333) comparing to N2DRM. 23 (8.3%) at FDR <3%, 44 (11%) at FDR <5.5%, with expression in age-1(mg44, m333) > N2DRM.
- 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.
- WBPaper00045257:bar-1(ga80)_upregulated
All statistical analyses were performed using the statistical programming language R (version 2.13.1 x 64). A linear model was used to determine the effect and significance of the genotype on the expression levels (probe intensity + genotype + error). Using permutations of the original data in the same linear model, authors determined thresholds adjusted for multiple testing (FDR 0.05: -log10(p) > 2; FDR 0.01: -log10(p) > 3). To correct for the developmental difference between bar-1(ga80) and N2 authors used the developmental gene expression data from Snoek et al. (2014) together with the gene expression data generated for this study (bar-1(ga80) vs. N2) in one linear model (probe intensity, sample age + genotype + error). The intensities were corrected for batch effect and for sample age authors used an age of 44 hours for the bar-1(ga80) samples (as estimated), and 48 hours for the N2 samples.
Genes that showed increased expression in bar-1(ga80) animal comparing to in N2.