23 Expression clusters found (0.009 seconds)

N.A. Proteins interacting with HA-PPM-1.D.

hierarchical clustering Germline-enriched and sex-biased expression profile cluster D.

[ANOVA, p < 0.05 without multiple sample correction, fold-change to reference sediment Danube (D) > 1.4 (up-regulated) or < 0.7 (down-regulated)]. Genes with significantly changing transcripts in C. elegans exposed to the Elbe (E) sediment.

WBPaper00033070:Elbe_upregulated

WBPaper00033070:Rhine_downregulated

WBPaper00033070:Rhine_upregulated

WBPaper00061040:FW1256_upregulated

The DESeq2 package (v1.24.0) was used to identify differentially expressed genes (DEGs). Fold change > 2, FDR < 0.05. Transcripts that showed significantly increased expression after animals were exposed to 500 uM of 3-dihydro-2-phenyl-sulfanylenebenzo[d] [1,3,2]-oxazaphosphole (FW1256) from L1 stage larvae onwards.

WBPaper00061040:FW1256_downregulated

The DESeq2 package (v1.24.0) was used to identify differentially expressed genes (DEGs). Fold change > 2, FDR < 0.05. Transcripts that showed significantly decreased expression after animals were exposed to 500 uM of 3-dihydro-2-phenyl-sulfanylenebenzo[d] [1,3,2]-oxazaphosphole (FW1256) from L1 stage larvae onwards.

WBPaper00031486:daf-16_upregulated

Raw microarray data (cel files) were normalized, fold-changes between genotypes were determined, and global statistical analysis was performed, using a slightly modified version of the recently described Goldenspike methodology implemented in R (version 2.0.1) (Choe et al. 2005). Briefly, this procedure performs eight different normalization routines, which are then used to produce an average fold-change difference and false-discovery rate (q-value) between different genotypes that takes into consideration the variance of probe set intensity across the different normalizations. The Goldenspike methodology has been shown to out-perform most commonly used normalization methods (Choe et al. 2005). The Goldenspike protocol was altered slightly to exclude absent probe sets (those probe sets called absent in all hybridizations by MAS5) prior to the final probe-set-level Loess normalization. This alteration was found to reduce the number of false positives associated with the absent probe sets (Schuster et al. 2007). Genes showing significantly decreased expression in daf-16(mgDf50);daf-2(e1370) comparing to daf-2(e1370), but not in daf-2(m577).

WBPaper00031060:2-deoxy-D-glucose_upregulated

Ratios for transcript-level regulation as control- over DOG-treated signal intensities were obtained to illustrate the extent of regulation (Affymetrix GCOS 1.4 software; threshold for downregulation was set to 1.50 and for upregulation to 0.66). Genes that showed increased expression after treated with 2-deoxy-D-glucose.

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