- WBPaper00053420:Microgravity-Simulated_downregulated
Transcriptome Analysis Console version 3.0 software (Affymetrix, CA, USA) for differential gene expression analysis. Selection of differentially expressed genes was basd on filter criteria which were defined as one-way ANOVA p-value of < 0.05 with fold changes of <2 and >2.
Gene that showed significantly decreased expression by microgravity simulation using a desktop RPM, from hatching to L4 larva stage.
- WBPaper00053420:Microgravity-Simulated_upregulated
Transcriptome Analysis Console version 3.0 software (Affymetrix, CA, USA) for differential gene expression analysis. Selection of differentially expressed genes was basd on filter criteria which were defined as one-way ANOVA p-value of < 0.05 with fold changes of <2 and >2.
Genes that showed significantly increased expression by microgravity simulation using a desktop RPM, from hatching to L4 larva stage.
- WBPaper00040185:nhr-23(RNAi)_downregulated
Microarray chip data was collected and analyzed by both Affymetrix MAS 5.0 suite software (>= 1.6-fold change in mRNA expression) and Robust Multichip Average (RMA) (>= 1.2-fold change in mRNA expression) as part of the Partek genomics suite software package, all with a p-value less than or equal to 0.05. Normalized data was further analyzed and visualized with Genespring software (Agilent Technologies, Santa Clara, CA).
Genes that showed decreased expression in nhr-23 RNAi experiment.
- WBPaper00038304:octr-1_regulated
Microarray data were subjected to the robust multichip averaging algorithm using GeneSpring GX software (Agilent Technologies, Santa Clara, CA). Analysis of variance t test and fold-change calculations were also performed using GeneSpring GX software. Probability calculations of enrichment were performed using the hypergeometric probability test (http://elegans.uky.edu/MA/progs/overlap_stats.html) to calculate the statistical significance of the overlap of gene groups.
Genes regulated by octr-1(ok371) after infected with P. aeruginosa PA14 for 4 hours at 25 centigrade.
- WBPaper00049159:Microwave_downregulated_L4
The mapped data of three replicates of each group were inputted into the Cufflinks software for gene expression difference test and averaged gene expression levels were reported in FPKM (fragments per kilobase of transcript per million fragments sequenced). Authors performed the Benjamin-Hochberg procedure of FDR analysis in gene expression difference tests to control the potential false positives introduced by multiple testing. The thresholds of false discovery rate (FDR) < 0.01 and absolute log fold change > 2 were used to determine the significantly upregulated and downregulated genes between different groups.
Transcripts that showed significantly decreased expression after exposure to 1750 MHz radio frequency fields for 35 hours.
- WBPaper00049159:Microwave_upregulated_adult
The mapped data of three replicates of each group were inputted into the Cufflinks software for gene expression difference test and averaged gene expression levels were reported in FPKM (fragments per kilobase of transcript per million fragments sequenced). Authors performed the Benjamin-Hochberg procedure of FDR analysis in gene expression difference tests to control the potential false positives introduced by multiple testing. The thresholds of false discovery rate (FDR) < 0.01 and absolute log fold change > 2 were used to determine the significantly upregulated and downregulated genes between different groups.
Transcripts that showed significantly increased expression after exposure to 1750 MHz radio frequency fields for 50 hours.
- WBPaper00049159:Microwave_downregulated_adult
The mapped data of three replicates of each group were inputted into the Cufflinks software for gene expression difference test and averaged gene expression levels were reported in FPKM (fragments per kilobase of transcript per million fragments sequenced). Authors performed the Benjamin-Hochberg procedure of FDR analysis in gene expression difference tests to control the potential false positives introduced by multiple testing. The thresholds of false discovery rate (FDR) < 0.01 and absolute log fold change > 2 were used to determine the significantly upregulated and downregulated genes between different groups.
Transcripts that showed significantly decreased expression after exposure to 1750 MHz radio frequency fields for 50 hours.
- WBPaper00049159:Microwave_upregulated_L4
The mapped data of three replicates of each group were inputted into the Cufflinks software for gene expression difference test and averaged gene expression levels were reported in FPKM (fragments per kilobase of transcript per million fragments sequenced). Authors performed the Benjamin-Hochberg procedure of FDR analysis in gene expression difference tests to control the potential false positives introduced by multiple testing. The thresholds of false discovery rate (FDR) < 0.01 and absolute log fold change > 2 were used to determine the significantly upregulated and downregulated genes between different groups.
Transcripts that showed significantly increased expression after exposure to 1750 MHz radio frequency fields for 35 hours.