|
Bacteria: E.faecalis strain OG1RF |
Transcripts that showed significantly increased expression after infection by E. faecalis OG1RF. |
Ballgown was used to calculate differential expression of genes using FPKM data and to generate tables with fold change and P values. Genes were shortlisted with a cutoff of 2-fold change and P values of less than 0.05. |
WBPaper00059754:E.faecalis_OG1RF_upregulated
|
|
|
Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals. |
Fold change > 2, FDR < 0.05 |
WBPaper00064088:Day-1-adult_vs_L4_upregulated_glp-1(e2141)
|
|
|
Transcripts that showed significantly increased expression in ilc-17.1(syb5296) comparing to in N2 animals at L4 larva stage. |
DESeq2, fold change > 2, FDR < 0.05. |
WBPaper00066594:ilc-17.1(syb5296)_upregulated
|
|
Bacteria: B.thuringiensis |
Transcripts in elt-2(RNAi) animals that were significantly differentially expressed at least for one time point on the non pathogenic strain Bt407 compared to E. coli OP50. |
Cuffdiff |
WBPaper00060358:B.thuringiensis_non-pathogen_regulated_elt-2(RNAi)
|
|
Bacteria: B.thuringiensis |
Transcripts in elt-2(RNAi) animals that were significantly differentially expressed at least for one time point and one pathogenic strain Bt247 and Bt679 compared to the non pathogenic strain Bt407. |
Cuffdiff |
WBPaper00060358:B.thuringiensis_pathogen_regulated_elt-2(RNAi)
|
|
|
Transcripts that showed significantly increased expression in set-2(zr2012) animals at embryo stage, comparing to in N2 animals. |
DESeq2 (v2.1.8.3) was used to determine DE genes and to generate principal component and scatter plots. DE genes with FDR < 0.05 were analysed using g:Profiler with Bonferroni correction. |
WBPaper00060014:set-2(zr2012)_upregulated
|
|
|
Transcripts that showed significantly increased expression in day 3 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals. |
Fold change > 2, FDR < 0.05 |
WBPaper00064088:Day-3-adult_vs_L4_upregulated_glp-1(e2141)
|
|
|
Transcripts that showed significantly increased expression in zip-3(gk3164) comparing to in N2, after exposed to P. aeruginosa for 18 hours. |
p < 0.05 |
WBPaper00056326:zip-3(gk3164)_upregulated_P.aeruginosa-infected
|
|
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure. |
Small RNAs (21-26nt) that showed significantly increased expression after L4 animals were exposed to P .aeruginosa strain PA14 for 24 hours. |
DESeq2, FDR < 0.05 |
WBPaper00056868:P.aeruginosa_upregulated_smallRNA
|
|
|
Transcripts that showed significantly increased expression in jmjd-5(zr1234) comparing to in N2 animals. |
DESeq2, adjusted p value < 0.01 and absolute log2FC > = 1. |
WBPaper00062156:jmjd-5(zr1234)_upregulated
|
|
Wounding: 2 hours after a single stab of a microinjection needle to either anterior or posterior body of lateral hyp7 (avoid the gonad) 24 hr after the L4 stage. |
Transcripts that showed significantly increased expression 2 hours after animals had a single stab of a microinjection needle to either anterior or posterior body of lateral hyp7 (avoid the gonad) 24 hr after the L4 stage. |
The cutoff for differential expressed genes (DEGs) were: Benjamini-Hochberg adjustedP-valueless than 0.05 and fold change larger than 1.5. |
WBPaper00059987:Wounding_upregulated
|
|
|
Transcripts that showed significantly decreased expression in unc-70(cas983) comparing to in N2 at L1 larva stage. |
DESeq2, fold change >= 2, FDR <= 0.05 |
WBPaper00057041:unc-70(cas983)_downregulated
|
|
|
Transcripts that showed significantly increased expression in lpd-3(ok2138) comparing to in N2 animals. |
DESeq2, fold change > 4, FDR < 0.05. |
WBPaper00064661:lpd-3(ok2138)_upregulated
|
|
|
Transcripts that showed significantly increased expression in lin-53(RNAi) embryos comparing to control animals. |
DESeq2, fold change > 2, FDR < 0.05. |
WBPaper00067044:lin-53(RNAi)_upregulated
|
|
|
Transcripts that showed significantly increased expression in nfki-1(cer1) animals at L4 larva stage, comparing to in N2 animals. |
Differentially expressed genes between wild type and knockouts were explored using DESeq2 R package (v.1.20.0) considering a threshold of adjusted p value < 0.01. |
WBPaper00060445:nfki-1(cer1)_upregulated_L4
|
|
male mating |
Transcripts that showed significantly increased expression in sterile glp-1(e2144) animals after exposed to males during day 2 to day 7 adult stage. |
DESeq2 v.1.10.1, fold change > 2, FDR < 0.05. |
WBPaper00065315:mating_upregulated_Day2-7
|
|
|
Transcripts of noncoding genes that showed significantly decreased expression in muscle. |
DESeq2 (version 1.24.0). Transcripts with a false-discovery rate adjusted p-value less than 0.05 were considered significantly differentially expressed. |
WBPaper00062325:muscle_depleted_noncoding-RNA
|
