- WBPaper00032003:ced-1(e1735)_upregulated
The microarray data were subjected to the Robust Multichip Averaging (RMA) Algorithm by using Partek Software (Partek, Inc., St. Charles, Missouri). GeneSpringSoftware9.0(AgilentTechnologies) was used to perform hierarchial cluster analysis.
Genes that showed increased expression in ced-1(e1735) comparing with in N2.
- 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.
- WBPaper00065746:tmc-1(rg1003)_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 tmc-1(rg1003) comparing to in N2.
- WBPaper00065746:eat-2(ad1113)_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 eat-2(ad1113) comparing to in N2.