WormMine

WS294

Intermine data mining platform for C. elegans and related nematodes

Life Stage :

Definition  At 20 Centigrade: 96-120 hours after L4-adult molt. 7-8 days after first cleavage. Primary Identifier  WBls:0000067
Public Name  4-days post-L4 adult hermaphrodite Ce
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0 Anatomy Terms

2 Contained In

Remark Definition Other Name Public Name Primary Identifier
  The stage after an hermaphrodite animal is fully-developed and reaches maturity. adult hermaphrodite Ce WBls:0000057
  A C. elegans life stage that occurs during the adult life stage C. elegans life stage occurring during adulthood WBls:0000816

48 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  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
  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
  Transcripts that showed significantly decreased expression in lin-28(RNAi) animals comparing to in control animals. Cuffdiff was used to search for the differentially expressed genes (FDR < 0.1). WBPaper00050234:lin-28(RNAi)_downregulated
  Transcripts that showed significantly increased 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_upregulated_mRNA_N2
Hypoxia: 7% oxygen. Transcripts that showed significantly increased expression at animals treated with 7% oxygen, comparing to animals grown at 21% oxygen. Fold change > 2, p-value < 0.05. WBPaper00060661:hypoxia_upregulated
  Transcripts that showed significantly depleted 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_depleted
  Transcripts that showed significantly increased expression in daf-16(mu86);fer-15(b26ts) comparing to in fer-15(b26ts) at 4-day or 5-day post L4 adult hermaphrodite stage. DESeq2 (v1.18.1), ajusted p-value < 0.05 WBPaper00056218:daf-16(mu86)_upregulated_Day5
Dietary restriction. From day 1 till day 4 of adult. Transcripts that showed significantly decreased expression in 4-day post L4 adult hermaphrodite N2 anminals after 4 days on dietary restriction, comparing to fully fed animals. edgeR, FDR < 0.05 WBPaper00057006:DietaryRestriction_downregulated
  Transcripts that showed significantly increased expression after young adult animals were treated with 20ml per ml Octopamine for 2 days. Fold-Change cut-off : 2.0 WBPaper00050767:Octopamine_induced
  Transcripts that showed significantly increased expression in DLS357 [ceh-60(ok1485)] comparing to in N2 at day 4 adults. DESeq2, fold change > 2, FDR < 0.01. WBPaper00056550:ceh-60(ok1485)_upregulated_AdultDay4
  Transcripts that showed significantly increased expression in sid-3(ok973) comparing to in N2 at 4 days post L4 adult hermaphrodite stage. RNA-seq data were aligned to the C. elegans transcriptome WS190 using bowtie2. Counts were obtained from resulting BAM files using BEDTools, and these were used to generate normalized data tables using DESeq. A cutoff of mean 25 normalized reads (normalized according to DESeq negative binomial distribution) for at least one condition was used, and significantly altered genes were selected (DESeq Benjamini-Hochberg multiple-test correction q < 0.1). WBPaper00053020:sid-3(ok973)_upregulated
  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
Fasting Transcripts that were up regulated by fasting. N.A. WBPaper00050538:Fasting_upregulated
  Transcripts that showed significantly increased expression in lin-28(RNAi) animals comparing to in control animals. Cuffdiff was used to search for the differentially expressed genes (FDR < 0.1). WBPaper00050234:lin-28(RNAi)_upregulated
Fasting Transcripts that were up regulated by fasting in a cholesterol-dependent manner N.A. WBPaper00050538:Fasting_upregulated_cholesterol-dependent
  Transcripts that showed significantly increased expression in sta-1(ok587) comparing to in N2 at 4 days post L4 adult hermaphrodite stage. RNA-seq data were aligned to the C. elegans transcriptome WS190 using bowtie2. Counts were obtained from resulting BAM files using BEDTools, and these were used to generate normalized data tables using DESeq. A cutoff of mean 25 normalized reads (normalized according to DESeq negative binomial distribution) for at least one condition was used, and significantly altered genes were selected (DESeq Benjamini-Hochberg multiple-test correction q < 0.1). WBPaper00053020:sta-1(ok587)_upregulated
Hypoxia: 7% oxygen. Transcripts that showed significantly decreased expression at animals treated with 7% oxygen, comparing to animals grown at 21% oxygen. Fold change > 2, p-value < 0.05. WBPaper00060661:hypoxia_downregulated
  Transcripts 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_mRNA
Dietary restriction. From day 1 till day 4 of adult. Transcripts that showed significantly increased expression in 4-day post L4 adult hermaphrodite N2 anminals after 4 days on dietary restriction, comparing to fully fed animals. edgeR, FDR < 0.05 WBPaper00057006:DietaryRestriction_upregulated
  Genes that showed increased expression in 250uM tyrosol comparing to in control solution. Statistically significant differences between groups were identified using the rank product nonparametric test implemented in the Bioconductor Rank-Prod package. Those genes showing a corrected p-value < 0.05 were selected as significant. WBPaper00046639:tyrosol_upregulated
  Transcripts that showed significantly increased expression after exposure to S-astaxanthin for 96 hours (starting from L4 larva), comparing to control treatment (0.2% DMSO), for 96 h (start from L4) with oxidative stress (10 mM paraquat) applied for 24 h. False Discovery Rate (FDR) method was used to determine the threshold of P-value in multiple tests which corresponds to differential gene expression. WBPaper00049979:S-astaxanthin_upregulated
Virus infection: Orsay virus infection at 1-day post L4 adult hermaphrodite for three days. Transcripts that showed significantly increased expression after infected by 20ul Orsay virus filtrate per 50-mm plate for 3 days starting from 16 hours after L4 larva stage. RNA-seq data were aligned to the C. elegans transcriptome WS190 using bowtie2. Counts were obtained from resulting BAM files using BEDTools, and these were used to generate normalized data tables using DESeq. A cutoff of mean 25 normalized reads (normalized according to DESeq negative binomial distribution) for at least one condition was used, and significantly altered genes were selected (DESeq Benjamini-Hochberg multiple-test correction q < 0.1). WBPaper00053020:OrsayVirus-infection_upregulated
  Transcripts that showed significantly decreased expression in daf-16(mu86);fer-15(b26ts) comparing to in fer-15(b26ts) at 4-day or 5-day post L4 adult hermaphrodite stage. DESeq2 (v1.18.1), ajusted p-value < 0.05 WBPaper00056218:daf-16(mu86)_downregulated_Day5
Bacteria diet: E.coli HB101 Transcripts downregulated in F3 generation of transgenic C. elegans expressing human alpha-syn in DA neurons fed HB101 0E. coli vs. OP50. Differentially expressed genes were extracted using DESeq, version 1.10.1. Assembly: PRJNA13758.WBPS13 WBPaper00065560:E.coli-HB101_downregulated_F3
  Transcripts that showed significantly decreased expression in sid-3(ok973) comparing to in N2 at 4 days post L4 adult hermaphrodite stage. RNA-seq data were aligned to the C. elegans transcriptome WS190 using bowtie2. Counts were obtained from resulting BAM files using BEDTools, and these were used to generate normalized data tables using DESeq. A cutoff of mean 25 normalized reads (normalized according to DESeq negative binomial distribution) for at least one condition was used, and significantly altered genes were selected (DESeq Benjamini-Hochberg multiple-test correction q < 0.1). WBPaper00053020:sid-3(ok973)_downregulated
  Transcripts that showed significantly decreased expression in sta-1(ok587) comparing to in N2 at 4 days post L4 adult hermaphrodite stage. RNA-seq data were aligned to the C. elegans transcriptome WS190 using bowtie2. Counts were obtained from resulting BAM files using BEDTools, and these were used to generate normalized data tables using DESeq. A cutoff of mean 25 normalized reads (normalized according to DESeq negative binomial distribution) for at least one condition was used, and significantly altered genes were selected (DESeq Benjamini-Hochberg multiple-test correction q < 0.1). WBPaper00053020:sta-1(ok587)_downregulated
Virus infection: Orsay virus infection at 1-day post L4 adult hermaphrodite for three days. Genes that showed significantly increased expression after infected by 20ul Orsay virus filtrate per 50-mm plate for 3 days starting from 16 hours after L4 larva stage. Differentially regulated genes in any condition were identified by using t test, P < 0.01, and a twofold difference upon infection. WBPaper00053020:OrsayVirus-infection_upregulated_microarray
Bacteria diet: E.coli HB101 Transcripts downregulated in P0 generation of transgenic C. elegans expressing human alpha-syn in DA neurons fed HB101 0E. coli vs. OP50. Differentially expressed genes were extracted using DESeq, version 1.10.1. Assembly: PRJNA13758.WBPS13 WBPaper00065560:E.coli-HB101_downregulated_P0
  Proteins that co-aggregated with Q40-YFP in day 4 adults that were sarcosyl-insoluble. N.A. WBPaper00046161:Q40-aggregate-protein_Day4_Sarcosyl-insoluble
  Transcripts that showed significantly decreased expression in DLS357 [ceh-60(ok1485)] comparing to in N2 at day 4 adults. DESeq2, fold change > 2, FDR < 0.01. WBPaper00056550:ceh-60(ok1485)_downregulated_AdultDay4

1 Expression Patterns

Remark Reporter Gene Primary Identifier Pattern Subcellular Localization
    Expr14248    

1 Followed By

Remark Definition Other Name Public Name Primary Identifier
  At 20 Centigrade: 5-6 days after L4-adult molt. 8-9 days after first cleavage. 5-days post-L4 adult hermaphrodite Ce WBls:0000068

1 Preceded By

Remark Definition Other Name Public Name Primary Identifier
  At 20 Centigrade: 72-96 hours after L4-adult molt. 6-7 days after first cleavage. 3-days post-L4 adult hermaphrodite Ce WBls:0000066

0 Sub Stages