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Transcripts that showed significantly increased expression in animals with germline-specific inx-14(RNAi) comparing to in aniamls fed with control vector, both exposed to PA14 infection. |
DESeq2. Differentially-expressed genes (DEG) were identified based on two criteria: FDR (False discovery rateusing Benjamini-Hochberg adjusted p-values) < 0.01 and absolute value of log2(Fold Change) > 1. |
WBPaper00066146:germline-inx-14(RNAi)_upregulated_PA14
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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 significantly increased expression in day 3 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals. |
Fold change > 2, FDR < 0.05 |
WBPaper00064088:Day-3-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
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Acidic Environment: PH 4.33 vs. PH 6.33. |
Transcripts that showed significantly increased expression after 3 hours of exposure to acidic environment (PH 4.33), comparing to control animals exposed to PH 6.33 environment. |
DESeq2 (1.16.1). The Benjamini and Hochberg's approach was used to adjust the resulting P-values to control the false discovery rate. Corrected value of P < 0.05 and fold change > 2 were set as the threshold for significantly differential expression. |
WBPaper00060434:pH4.33_vs_pH6.33_uprgulated
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Bacteria infection: Staphylococcus aureus |
Transcripts that showed significantly increased expression in animals infected by the widespread animal pathogen, Staphylococcus aureus, comparing to animals not infected by pathogen. |
DeSeq2 (v. 1.42.0), Wald analyses testing against a null hypothesis of < |1.5|-fold change in gene expression between treatments (BenjaminiHochberg adjusted false detection rate of p <= 0.05. |
WBPaper00067479:Pathogen_vs_control_upregulated
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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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Bacteria infection: Staphylococcus aureus |
Transcripts that showed significantly increased expression in animals experimentally colonised by a wild microbiota community and infected by the widespread animal pathogen, Staphylococcus aureus, comparing to animals not colonized by microbiota and not infected by pathogen. |
DeSeq2 (v. 1.42.0), Wald analyses testing against a null hypothesis of < |1.5|-fold change in gene expression between treatments (BenjaminiHochberg adjusted false detection rate of p <= 0.05. |
WBPaper00067479:Microbiota-Pathogen_vs_control_upregulated
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Bacteria infection: Staphylococcus aureus |
Transcripts that showed significantly increased expression in animals experimentally colonised by a wild microbiota community and infected by the widespread animal pathogen, Staphylococcus aureus, comparing to animals colonized by microbiota but not infected by pathogen. |
DeSeq2 (v. 1.42.0), Wald analyses testing against a null hypothesis of < |1.5|-fold change in gene expression between treatments (BenjaminiHochberg adjusted false detection rate of p <= 0.05. |
WBPaper00067479:Microbiota-Pathogen_vs_Microbiota_upregulated
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Feeding for 4 hours after L1 arrest. |
Transcripts that showed significantly decreased expression after 4 hours of feeding of starvation-induced arrested L1 N2 animals, comparing to animals continue to starve. |
DESeq2, FDR < 0.05, fold change > 2. |
WBPaper00067518:food_downregulated_N2
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Feeding for 4 hours after L1 arrest. |
Transcripts that showed significantly decreased expression after 4 hours of feeding of starvation-induced arrested L1 rsks-1(ok1255) animals, comparing to animals continue to starve. |
DESeq2, FDR < 0.05, fold change > 2. |
WBPaper00067518:food_downregulated_rsks-1(ok1255)
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Transcripts that showed significantly increased expression by somatic RAGA-1 degradation. |
DESeq2_1.34.0, FDR < 0.01, fold change > 2. |
WBPaper00066005:RAGA-1_degradation_somatic_upregulated
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Transgeneration hypoxia treatment. |
Transcripts that are significantly downregulated in F1 animals after P0 parents were exposed to 0.1% oxygen for 16 hours at L4 larva stage. |
For calling the significant differentially expressed genes (DEGs),the false discovery rate (FDR) after multiple testing correction was set as 0.05 and analyzed in edgeR. |
WBPaper00064871:hypoxia_downregulated_F1
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Single-cell RNA-Seq cell group 4_2 expressed in muscle. |
scVI 0.6.0 |
WBPaper00065841:4_2
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Single-cell RNA-Seq cell group 4_0 expressed in muscle. |
scVI 0.6.0 |
WBPaper00065841:4_0
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Single-cell RNA-Seq cell group 4_1 expressed in muscle. |
scVI 0.6.0 |
WBPaper00065841:4_1
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