WBPaper00067241:Hard-Agar_upregulated

DESeq2, fold change > 2, FDR < 0.05. Transcripts that showed significantly increased expression in N2 animals grown on 4% agar plate vs. on 2% agar plates.

WBPaper00067241:Hard-Agar_downregulated

DESeq2, fold change > 2, FDR < 0.05. Transcripts that showed significantly decreased expression in N2 animals grown on 4% agar plate vs. on 2% agar plates.

WBPaper00048530:fshr-1(ok778)_upregulated

Two-tailed two-sample t-test. Genes that showed more than 2 fold of expression in fshr-1(ok778) grown on OP50 comparing to in N2 animals grown on OP50.

WBPaper00057265:metaformin_upregulated_OP50

DESeq2, FDR < 0.05, fold change > 2. Transcripts that showed significantly increased expression among worms grown on metformin-supplemented OP50 from L1 to day 2 adult stage, comparing to animals grown on OP50 lawns.

WBPaper00057265:metaformin_downregulated_OP50

DESeq2, FDR < 0.05, fold change > 2. Transcripts that showed significantly decreased expression among worms grown on metformin-supplemented OP50 from L1 to day 2 adult stage, comparing to animals grown on OP50 lawns.

WBPaper00037611:GLD-2-associated

Two-class unpaired SAM (median-centered). GLD-2-associated transcripts, based on microarray experiments.

WBPaper00051448:P.aeruginosa_Slow-Killing_upregulated

Genes were considered differentially expressed on the basis of a modified Wilcoxon rank test, fold change > 2, modified Wilcoxon rank > 1.5). Transcripts that showed significantly increased expression after Pseudomonas aeruginosa infection on agar plates(Slow Killing).

WBPaper00037611:RNP-8-associated

Two-class unpaired SAM (median-centered). RNP-8-associated transcripts, based on microarray experiments.

WBPaper00061527:pgl-1-wago-2

All available microarray datasets for the GPL200 platform (Affymetrix C. elegans Genome Array) were obtained from the GEO repository. This included 2243 individual microarray experiments. These were normalized against each other with the software RMAexpress (Bolstad, 2014). Based on these normalized values, Pearsons correlation coefficients were obtained for each probe-probe pair of the 22,620 probes represented on this array type. The resulting list of correlation coefficients was then ranked to generate the ranked coexpression database with information on each probe represented on the GPL200 platform. Coexpression clique No. 52, pgl-1-wago-2, on the genome-wide coexpression clique map for the nematode GPL200 platform.

WBPaper00061527:F58F9.3_11574-R07B7.6

All available microarray datasets for the GPL200 platform (Affymetrix C. elegans Genome Array) were obtained from the GEO repository. This included 2243 individual microarray experiments. These were normalized against each other with the software RMAexpress (Bolstad, 2014). Based on these normalized values, Pearsons correlation coefficients were obtained for each probe-probe pair of the 22,620 probes represented on this array type. The resulting list of correlation coefficients was then ranked to generate the ranked coexpression database with information on each probe represented on the GPL200 platform. Coexpression clique No. 160, F58F9.3_11574-R07B7.6, on the genome-wide coexpression clique map for the nematode GPL200 platform.