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Significantly downregulated genes from cyc-1(RNAi) microarrays using SAM algorithm with an FDR < 0.1 from adult-only chips. |
SAM algorithm with an FDR < 0.1. |
WBPaper00033065:cyc-1(RNAi)_downregulated
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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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Proteins expressed in intestine cytoplasm, according to tissue specific APX enzyme expression using spp-5 promoter driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry. |
Fold change > 2. |
WBPaper00051245:intestine_cytoplasm_expressed
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Transcripts that interact with 3xFLAG-DLC-1 as identified by immunoprecipitation followed by RNA sequencing. |
DESeq2, fold change > 2,, p-value < 0.01 |
WBPaper00055334:DLC-1_interacting
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Transcripts that showed significantly decreased 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)_downregulated_neuron
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Proteins expressed in body wall muscle cytoplasm, according to tissue specific APX enzyme expression using myo-3 promoter driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry. |
Fold change > 2. |
WBPaper00051245:body-wall-muscle_cytoplasm_expressed
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Proteins specifically expressed in cytoplasm, according to tissue specific APX enzyme expression driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry. |
Fold change > 2. |
WBPaper00051245:cytoplasm_specific
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Proteins expressed in epidermis cytoplasm, according to tissue specific APX enzyme expression using dpy-7 promoter driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry. |
Fold change > 2. |
WBPaper00051245:epidermis_cytoplasm_expressed
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Proteins expressed in pharyngeal muscle cytoplasm, according to tissue specific APX enzyme expression using myo-2 promoter driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry. |
Fold change > 2. |
WBPaper00051245:pharyngeal-muscle_cytoplasm_expressed
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Genes that showed significantly decreased expression after exposure to 1mg/L MWCNTs from L1 larva to young adult. |
Transcripts with false discovery rate-corrected p-values < 0.05 and fold change > 2 were defined as differentially expressed. |
WBPaper00049377:MWCNT_downregulated
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Genes that showed significantly increased expression level in rsr-2(RNAi) animals comparing to in gfp(RNAi) control. |
Fold change > 1.2 or < 0.8. |
WBPaper00042477:rsr-2(RNAi)_upregulated_TilingArray
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Transcripts that showed significantly decreased expression in spn-4(tm291) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult. |
RPKM fold change > 2. |
WBPaper00058598:spn-4(tm291)_downregulated
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Transcripts that showed significantly decreased expression in animals lacking P granules by RNAi experiments targeting pgl-1, pgl-3, glh-1 and glh-4, and unc-119-GFP(+), comparing to in control animals, at 2-day post L4 adult hermaphrodite stage. |
DESeq2, Benjamini-Hochberg multiple hypothesis corrected p-value < 0.05 and fold change > 2. |
WBPaper00050859:downregulated_P-granule(-)GFP(+)_vs_control_day2-adult
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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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Neuronal proteins that showed significantly decreased expression in day 12 adult comparing to in day 1 adult through in vivo TurboIDlabeling proteomic profiling. |
DESeq2, log2FC > 1, FDR < 0.05 |
WBPaper00064789:Day12_vs_Day1_downregulated_neuron
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