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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
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Transcripts that showed significantly increased expression in ogt-1(ok1474) neuronal cells isolated by FACs comparing to in FACs isolated neuronal cells from wild type. |
DESeq2, fold change > 2, FDR < 0.05. |
WBPaper00066485:ogt-1(ok1474)_upregulated_neuron
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Genes that were not enriched in either spermatogenic fem-3(q96gf) nor oogenic fog-2(q71) gonads, according to RNAseq analysis. |
To identify differentially expressed transcripts, authors used R/Bioconductor package DESeq. |
WBPaper00045521:Gender_Neutral
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Transcripts that showed significantly increased expression in daf-2(e1370) neurons comparing to in N2 neurons at day 8adult stage. |
DESeq2, FDR < 0.05, fold change > 2. |
WBPaper00066978:daf-2(e1370)_upregulated_neuron
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Transcripts that showed significantly increased expression in daf-16(mu86);daf-2(e1370) neurons comparing to in daf-2(e1370) neurons at day 8adult stage. |
DESeq2, FDR < 0.05, fold change > 2. |
WBPaper00066978:daf-16(mu86)_upregulated_neuron
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Transcripts that showed significantly decreased expression in day 1 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals. |
Fold change > 2, FDR < 0.05 |
WBPaper00064088:Day-1-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
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Transcripts that showed significantly increased expression in mrps-5(RNAi) animals comparing to animals injected with empty vector. |
Differential expression was assessed using a Partial least-squares discriminant analysis (PLS-DA) using mixomics setting a variable of importance (VIP) score of greater than 1 as significant. |
WBPaper00059328:mrps-5(RNAi)_upregulated_mRNA
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Transcripts enriched in invading anchor cells comparing to in whole animal. |
DESeq2v.1.30.1. fold change >= 2, FDR < 0.05 |
WBPaper00065258:anchor-cell_enriched
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Targets of endo-siRNA that showed significantly decreased expression in BFF40[meg-3(tm4259);meg-4(ax2026);mex-5::gfp::h2b::tbb-2] comparing to in SX1263[Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] dissected gonad isolated from 1-day old adult hermaphrodites. |
DESeq2, fold change > 2, FDR < 0.01 |
WBPaper00057140:meg-3(tm4259)_meg-4(ax2026)_downregulated
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Targets of endo-siRNA that showed significantly decreased expression in BFF39[pptr-1(tm3103);Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] comparing to in SX1263[Pmex-5::gfp::h2b::tbb-2 (mjIs134 II)] dissected gonad isolated from 1-day old adult hermaphrodites. |
DESeq2, fold change > 2, FDR < 0.01 |
WBPaper00057140:pptr-1(tm3103)_downregulated
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Transcripts that showed significantly decreased expression after 24 hours of treatment by 50 uM atracurium. |
Differential expression was assessed using an empirical Bayes moderated t test within limma's linear model framework including the precision weights estimated by voom. Resulting p-values were corrected for multiple testing using the Benjamini-Hochberg false discovery rate. Fold change > 2, p-value < 0.05. |
WBPaper00061636:atracurium_downregulated
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Bacteria: P.aeruginosa strain PA14 |
Transcripts that showed significantly increased expression after infection by P. aeruginosa PA14. |
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:P.aeruginosa_PA14_upregulated
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Bacteria: C.neoformans strain H99 |
Transcripts that showed significantly increased expression after infection by C. neoformans H99. |
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:C.neoformans_H99_upregulated
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