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Transcripts that showed significantly increased expression in L1 neural cells comparing to in adult neural cells. |
DESeq2 (v1.18.1) fold change > 2, P-adj<0.05, using BenjaminiHochberg correction. |
WBPaper00060811:L1_vs_adult_upregulated_neural
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Osmotic stress |
Transcripts that showed significantly altered expression with 500 mM salt (NaCl) vs 100 mM salt when food was present |
DESeq(version 1.10.1), FDR < 0.05. |
WBPaper00050726:OsmoticStress_regulated_Food
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Neuronally enriched transcripts according to a comparison of neuronal nuclei IP samples to total nuclei using isolation of nuclei from tagged specific cell types (INTACT) technology. |
DESEQ2, fold change > 2 and FDR < 0.01. |
WBPaper00062103:neuron_enriched
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Transcripts that showed significantly increased expression glp-1(e2141); TU3401 animals comparing to in TU3401 animals. |
Fold change > 2, FDR < 0.01. |
WBPaper00065993:glp-1(e2141)_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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Transcripts that showed significantly increased expression after four-day-old young adult worms were placed on NGM plates seeded with OP50 in the presence 5% Agaro-oligosaccharides(AGO) for 24 h, comparing to animals grown in the absence of AGO. |
Fold change > 2. |
WBPaper00064306:Agaro-oligosaccharides_upregulated
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Transcripts that showed significantly decreased expression in Day 5 (5-days post-L4) vs. Day 0 (L4 larva) of adulthood N2 animals. |
Differential expression for both small RNA- and mRNA-seq data was tested using DESeq2; P-values were adjusted for multiple testing by Benjamini-Hochberg method. |
WBPaper00053318:Aging_downregulated_mRNA_N2
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Transcripts that showed significantly decreased expression in mir-71(n4115) comparing to in N2 at 4-days post L4 adult hermaphrodite. |
Differential expression for both small RNA- and mRNA-seq data was tested using DESeq2; P-values were adjusted for multiple testing by Benjamini-Hochberg method. |
WBPaper00053318:mir-71(n4115)_downregulated_mRNA
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Transcripts that showed significantly altered expression at URX, AQR, and PQR neurons in camt-1(ok515) animals comparing to in wild type AX1888-1 strain. |
RNA-seq data were mapped using PRAGUI - a Python 3-based pipeline for RNA-seq data analysis. |
WBPaper00061902:camt-1(ok515)_regulated_URX-AQR-PQR
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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
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Transcripts that showed significantly increased expression in hda-2(ok1479) comparing to in N2 animals. |
DESeq2 (version 1.28.1), FDR < 0.01, fold change > 2. |
WBPaper00062159:hda-2(ok1479)_upregulated
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Transcripts that showed altered expression in cat-1(RNAi) animals comparing to control animals injected with empty vector. |
p-value <= 0.05 |
WBPaper00066902:cat-1(RNAi)_regulated
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Transcripts that showed significantly decreased expression in set-2(tm1630) 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(tm1630)_downregulated
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Transcripts detected in germline isolated from day-1 adult hermaphrodite animals. |
All three experiments have CPM >= 1. |
WBPaper00067147:germline_expressed
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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)
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Starvation |
Transcripts that showed significantly altered expression by starvation with 100 mM salt (NaCl) |
DESeq(version 1.10.1), FDR < 0.05. |
WBPaper00050726:starvation_regulated_LowSalt
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Transcripts that showed significantly increased expression in ints-5(RNAi) comparing to in N2. |
DESeq2 and edgeR. |
WBPaper00056284:ints-5(RNAi)_upregulated
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Transcripts that showed significantly increased expression in swsn-1(os22ts) comparing to in N2 animals at young adult worms. |
DESeq2, FDR<0.05 and fold-change 2. (Threshold set by WormBase curator.) |
WBPaper00060764:swsn-1(os22ts)_upregulated
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Transcripts that showed significantly lower expression in somatic gonad precursor cells (SGP) vs. head mesodermal cells (hmc). |
DESeq2, fold change >= 2, FDR <= 0.01. |
WBPaper00056826:hmc_biased
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Transcripts that showed significantly increased expression in ints-1(RNAi) animals comparing to control RNAi animals, at late L3 larva stage. |
DESeq2, v1.12.0, fold change > 2, FDR < 0.05 |
WBPaper00057068:ints-4(RNAi)_upregulated
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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
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Transcripts that showed significantly increased expression in ints-4(RNAi) animals treated with 300uM CdCl2 from L1 to late L3 larva stage, comparing to control RNAi animals with the same Cadmium treatment. |
DESeq2, v1.12.0, fold change > 2, FDR < 0.05 |
WBPaper00057068:ints-4(RNAi)_upregulated_Cadmium
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Single-cell RNA-Seq cell group 36_3 expressed in neuron. |
scVI 0.6.0 |
WBPaper00065841:36_3
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Transcripts that showed significantly altered expression after 24 hour exposure to zidovudine (AZT) starting at L1 lava stage. |
DESeq |
WBPaper00053302:zidovudine_72h_regulated
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Single-cell RNA-Seq cell group 135_0 expressed in neuron. |
scVI 0.6.0 |
WBPaper00065841:135_0
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Transcripts that showed significantly increased expression in sensory neuron (labeled by iaIs25[Pgcy-37::GFP + unc-119(+)]) comparing to in whole worm. |
Fold change > 2, p-value < 0.05. |
WBPaper00060661:sensory-neuron_enriched
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Transcripts that showed significantly altered expression at RMG neurons in camt-1(ok515) animals comparing to in wild type AX1888-1 strain. |
RNA-seq data were mapped using PRAGUI - a Python 3-based pipeline for RNA-seq data analysis. |
WBPaper00061902:camt-1(ok515)_regulated_RMG
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Transcripts that showed significantly decreased 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)_downregulated_mRNA
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Transcripts that showed significantly decreased expression in spc-1(cas971) comparing to in N2 at L1 larva stage. |
DESeq2, fold change >= 2, FDR <= 0.05 |
WBPaper00057041:spc-1(cas971)_downregulated
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Transcripts of noncoding 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_noncoding-RNA
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