|
Bacteria infection: Pseudomonas aeruginosa PA14. 24 hours of exposure. |
Small RNAs (21-26nt) that showed significantly increased expression after L4 animals were exposed to P .aeruginosa strain PA14 for 24 hours. |
DESeq2, FDR < 0.05 |
WBPaper00056868:P.aeruginosa_upregulated_smallRNA
|
|
|
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
|
|
|
Genes with small RNAs upregulated in all four meg-3(ax3055) meg-4(ax3052) strains comparing to N2 |
DESeq2 |
WBPaper00057162:meg-3_meg-4_upregulated_sRNA
|
|
|
MicroRNAs that showed significantly decreased expression in alg-5(ram2), comparing to in N2. |
DESeq2, Fold change > 1.5. |
WBPaper00051404:alg-5(ram2)_downregulated_miRNA
|
|
|
miRNA that showed increased expression after 20mM nicotine treatment |
Statistical analysis was based on t-test for independent samples via SPSS. The results were further narrowed based on two criteria. Only the genes whose expression changed with a P < 0.05 and a fold change > 0.5, when compared to control, were considered as differentially expressed. Fold change was calculated as 2**(DeltaCt(treatment)-DeltaCt(control))-1. DeltaCt = Ct(miRNA)-Ct(aveMRNA). |
WBPaper00042480:20mM_nicotine_upregulated
|
|
|
miRNAs that showed increased expression in 1 day post L4 adult hermaphrodite eat-2(ad1116) comparing to in N2. |
A fold change >= 1.5 with a minimum read count of >= 10 were used to filter the differentially expressed miRNA. The p-value cutoff was set at p <= 0.05 based on Kals Z test statistical. |
WBPaper00046156:eat-2(ad1116)_Day1_upregulated
|
|
|
miRNAs that showed decreased expression in 8 days post L4 adult hermaphrodite eat-2(ad1116) comparing to in N2. |
A fold change >= 1.5 with a minimum read count of >= 10 were used to filter the differentially expressed miRNA. The p-value cutoff was set at p <= 0.05 based on Kals Z test statistical. |
WBPaper00046156:eat-2(ad1116)_Day8_downregulated
|
|
|
MicroRNAs that showed significantly decreased expression in alg-1(gk214), comparing to in N2. |
DESeq2, Fold change > 1.5. |
WBPaper00051404:alg-1(gk214)_downregulated_miRNA
|
|
|
MicroRNAs that showed significantly increased expression in alg-2(ok304), comparing to in N2. |
DESeq2, Fold change > 1.5. |
WBPaper00051404:alg-2(ok304)_upregulated_miRNA
|
|
|
MicroRNAs 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_miRNA_N2
|
|
|
miRNA with increased expression in N2 L4 larva comparing to in N2 L3 larva. |
DEGseq and GFOLD were used to analyze miRNAs expression. Authors chose miRNAs which had more than two-fold difference in expression (P < 0.001, q < 0.01 of Storey) from DEGseq, and miRNAs which had more than two-fold difference in expression (GFOLD score > 0 for up-regulation and GFOLD score < 0 for down-regulation) from GFOLD outcomes. Then authors obtained the intersection of up-regulated miRNAs and down-regulated miRNAs for each stage from the chosen miRNAs, respectively. |
WBPaper00045316:miRNA_N2_L4_vs_L3_upregulated_adult
|
|
|
miRNAs in F1 generation down regulated by exposure to 20uM and 20mM nicotine during F0 generation. |
Statistical analysis was based on t-test for independent samples via SPSS to compare each of the nicotine treatments with control (i.e. low vs. control and high vs. control). Welch test correction was performed to account for unequal variance in each of the compared groups (control and treatment). In addition, to increase the statistical stringency, miRNAs differential expression was deemed significant only if it fulfilled two criteria: p value , 0.05 and expression changed by at least 50% relative to control. |
WBPaper00049006:nicotine_downregulated_F1
|
|
|
MicroRNAs that showed significantly increased 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)_upregulated_miRNA
|
|
Bacteria infection: Pseudomonas aeruginosa PA14 |
miRNAs up regulated by Pseudomonas aeruginosa infection. |
N.A. |
WBPaper00046303:P.aeruginosa_upregulated_miRNA
|
|
|
MicroRNAs that showed significantly increased expression in alg-5(tm1163), comparing to in N2. |
DESeq2, Fold change > 1.5. |
WBPaper00051404:alg-5(tm1163)_upregulated_miRNA
|
|
|
Micro RNAs that showed significantly decreased expression in day 8 adults comparing to in day 1 adults in neuron. |
Differentially expressed miRNAs were identified using DEGseq based on unique molecular identifier (UMI). A minimum UMI sum of 10 in 3 replicates was set as the threshold of expression. MiRNAs with more than five reads were defined as expressed. Differential expression of miRNAs was analysed by t-test (P value < 0.05 and fold-change > 1.5 or < 0.67) after Box-Cox transformation. MiRNA targets were identified by TargetScanWorm (Release 6.2) and Pearson Correlation Coefficient smaller than -0.2. |
WBPaper00066447:Day8_vs_Day1_downregulated_neuron
|
