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mRNAs that showed decreased expression in 1 cell mebryo comparing to in oocyte, according to RNAseq analysis. |
Gaussian error propagation. As cutoff for the up-regulated genes authors used log2 fold change > 1 and P < 0.05 and as cutoff for the down-regulated genes authors used log2 fold change < -1 and P < 0.05. |
WBPaper00045420:fertilization_downregulated_transcript
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Bacteria infection: Enterococcus faecalis |
Genes with increased expression after 24 hours of infection by E.faecalis Fold changes shown are pathogen vs OP50. |
For RNA-seq and tiling arrays, log2 fold changes between gene expression values of infected versus uninfected nematodes were calculated. For log2 fold changes > 0.00001 the values > 81.25th percentile were defined as up-regulated and for log2 fold changes < -0.00001 the values < 18.75th percentile were defined as down-regulated. |
WBPaper00038438:E.faecalis_24hr_upregulated_TilingArray
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Genes that are significantly up regulated in tdp-1(ok803) poly(A) RNA-seq verses in N2. |
DESeq v1.14, with cut-off p-value < 0.05 and FDR < 0.1. |
WBPaper00046012:tdp-1(ok803)_upregulated
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Transcripts that showed significantly decreased expression in daf-16(mgDf50) comparing to in N2 at L1 larva stage. |
DESeq v1.20.0 was used to analyze differential gene expression. Transcripts with adjusted p-value < 0.05 were considered differentialled expressed. |
WBPaper00048971:daf-16(mgDf50)_downregulated_L1
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Transcripts that showed significantly decreased expression in daf-2(e1370); daf-18(nr2037) comparing to in daf-2(e1370) animals. |
Differentially expressed genes (fold change > 2 and adjusted p value < 0.05) were identified by using DESeq2 (v.1.22.2). |
WBPaper00061952:daf-18(nr2037)_downregulated
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Transcripts that showed significantly decreased expression in eat-2(ad1116) comparing to in N2 at 3-days post L4 adult hermaphrodite animals. |
DESeq2(v1.14.1), fold change > 2, p-value < 0.05 |
WBPaper00055354:eat-2(ad1116)_downregulated
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Transcripts that showed significantly decreased expression after animals were treated with 100uM Rapamycin and 250uM Allantoin from day 1 to day 3 adult hermaphradite. |
DESeq2(v1.14.1), fold change > 2, p-value < 0.05 |
WBPaper00055354:Rapamycin-Allantoin_downregulated
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Transcripts that showed significantly increased expression in nas-38(ok3407) comparing to in N2. |
A feature was classified upregulated if its FDR-corrected p-value was <= 0.05 and fold change was >= 2. Analogously, a gene was classified downregulated if its FDR-corrected p-value was <= 0.05 and fold change was <= -2. |
WBPaper00060703:nas-38(ok3407)_upregulated
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Transcripts of coding genes that showed significantly increased 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_enriched_coding-RNA
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Bacteria infection: Photorhabdus luminescens |
Genes with increased expression after 24 hours of infection by P.lumniescens Fold changes shown are pathogen vs OP50. |
For RNA-seq and tiling arrays, log2 fold changes between gene expression values of infected versus uninfected nematodes were calculated. For log2 fold changes > 0.00001 the values > 81.25th percentile were defined as up-regulated and for log2 fold changes < -0.00001 the values < 18.75th percentile were defined as down-regulated. |
WBPaper00038438:P.lumniescens_24hr_upregulated_TilingArray
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Transcripts that showed significantly decreased expression after animals were treated with 50uM Rifampicin and 100uM Psora from day 1 to day 3 adult hermaphradite. |
DESeq2(v1.14.1), fold change > 2, p-value < 0.05 |
WBPaper00055354:Rifampicin-Psora_downregulated
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Transcripts that showed significantly decreased expression in ash-2(RNAi) comparing to in wild type animals injected with vector. |
Differential mRNA expression using DESeq2. mRNAs with a FDR < 0.05 and fold change > 2 considered differentially expressed. |
WBPaper00066232:ash-2(RNAi)_downregulated_WT
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Enriched in ventral nerve cord (adult). |
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WBPaper00029359_1166
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Enriched in vulval muscle (adult), ventral nerve cord (larva), ventral nerve cord (adult), dorsal nerve cord (adult), body neurons (adult), body neurons (larva), tail neurons (larva), nerve ring (larva), dorsal nerve cord (larva), nerve ring (adult), body wall muscle (larva), lateral nerve cords/commissures (larva). |
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WBPaper00029359_1197
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Enriched in ventral nerve cord (larva), vulval muscle (adult), ventral nerve cord (adult), body neurons (adult), body neurons (larva), dorsal nerve cord (adult), tail neurons (larva), dorsal nerve cord (larva), nerve ring (adult), nerve ring (larva), tail neurons (adult), body wall muscle (larva). |
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WBPaper00029359_1291
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Transcripts that showed significantly increased expression in daf-2(e1370) comparing to in N2. |
Limma version 3.24.15. Fold change < 0.67 (p < 0.05). |
WBPaper00055827:daf-2(e1370)_upregulated
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Enriched in pharynx). |
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WBPaper00029359_1458
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Enriched in vulval muscle (adult), ventral nerve cord (larva), ventral nerve cord (adult), dorsal nerve cord (adult), body neurons (adult), body neurons (larva), tail neurons (larva), nerve ring (larva), nerve ring (adult), dorsal nerve cord (larva), body wall muscle (larva), lateral nerve cords/commissures (larva), tail neurons (adult). |
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WBPaper00029359_1546
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Co-expression group from Chronogram study. |
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WBPaper00029359_1549
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Co-expression group from Chronogram study. |
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WBPaper00029359_1557
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Co-expression group from Chronogram study. |
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WBPaper00029359_1599
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Transcripts that showed significantly increased expression in pfd-6(gk493446); daf-2(e1370) comparing to in daf-2(e1370). |
Limma version 3.24.15. Fold change < 0.67 (p < 0.05). |
WBPaper00055827:pfd-6(gk493446)_upregulated
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Enriched in pharynx), pharynx). |
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WBPaper00029359_1345
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Enriched in pharynx). |
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WBPaper00029359_1326
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Enriched in pharynx). |
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WBPaper00029359_1439
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