- WBPaper00040722:GPI-anchored_protein
Statistical analyses, including one-way analysis of variance, followed by Holms multiple-comparison test, were performed using R statistical package (R, version 2.11.0)
Glycosylphosphatidylinositol (GPI) anchored proteins identified using fluorochrome (Alexa 488) labeled inactivated aerolysin (FLAER) staining, fractionation, SDS-PAGE, liquid chromatography and mass spectrometry.
- WBPaper00026720:AmyloidBeta_oxidized
Statistical comparison of carbonyl levels of proteins, matched with anti-DNP positive spots on 2D-oxyblots from C. elegans expressing amyloid beta (142) and control C. elegans samples, were performed using both ANOVA, and Students t-tests.
Proteins that were increasingly carbonylated by human amyloid beata (1-42) (CL4176) comparing to in control worm (CL1234), according to 2D-PAGE and Mass Spec analysis.
- WBPaper00030839:Larval_A_Class
A two-class unpaired analysis of the data was performed to identify genes that differ by >= 1.5-fold from the reference at a FDR of <1% for the larval pan-neural, embryonic pan-neural, and larval A-class motor neuron datasets.
Larval A-class motor neuron enriched genes.
- WBPaper00030839:Embryo_A_Class
A two-class unpaired analysis of the data was performed to identify genes that differ by >= 1.5-fold from the reference at a FDR of <1% for the larval pan-neural, embryonic pan-neural, and larval A-class motor neuron datasets.
Embryonic A-class motor neuron enriched genes.
- WBPaper00032454:IR_upregulated
To identify differentially expressed genes, gene expression intensity was compared using a moderated t-test and a Bayes smoothing approach developed for a low number of replicates.
Genes up-regulated following ionizing radiation (IR) treatment.
- WBPaper00065746:tmc-1(rg1003)_upregulated
DESeq2. The genes with a fold change >= 2 and a false discovery rate (FDR) < 0.05 in a comparison were identified as significant DEGs.
Transcripts that showed significantly increased expression in tmc-1(rg1003) comparing to in N2.
- WBPaper00036464:S.aureus-RN6390_regulated
The two conditions were then compared in Resolver to determine fold change for each probe set and a p-value, using a modified t test. Genes with a 2-fold or greater fold change and a p-value ,0.01 were considered differentially expressed.
Genes with altered expression after 8 h S. aureus infection.
- WBPaper00065746:eat-2(ad1113)_downregulated
DESeq2. The genes with a fold change >= 2 and a false discovery rate (FDR) < 0.05 in a comparison were identified as significant DEGs.
Transcripts that showed significantly decreased expression in eat-2(ad1113) comparing to in N2.