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Figure 5 | Genome Biology

Figure 5

From: Phylogenetically and spatially conserved word pairs associated with gene-expression changes in yeasts

Figure 5

Enrichment for known transcription factor targets among individual gene groups. Gene-expression patterns are shown for genes whose TCRs contain the known binding sites for: (a) Cbf1p (CACGTG) and Met31/32p (TGTGGC); or (b) Hap1p (CCGATA) and Ecm22p/Upc2p (TCGTTT). The genes are listed in ascending order of minimum distance between the two conserved words in the corresponding TCRs of S. cerevisiae. Each row in these diagrams represents a given gene's expression pattern under the conditions shown in each column: exposure to increasing concentrations of cadmium chloride (from 0.05 mM to 0.4 mM); an amino-acid starvation timecourse; a nitrogen-source depletion timecourse [30]; and growth in the presence of drugs or genetic alterations that inhibit ergosterol biosynthesis (erg3Δ, itraconazole, erg28Δ, overexpressed ERG11, erg2Δ, tunicamycin, terbinafine, erg6Δ, overexpressed HMG2) [35]. A red color indicates that the gene's expression was induced under those conditions, while a green color indicates that the gene was repressed under those conditions; black indicates no detectable change in expression, and gray indicates missing data. Gene names in purple correspond to genes with confirmed roles in (a) sulfur utilization or (b) ergosterol biosynthesis; gene names in orange show highly correlated expression patterns, despite their lack of annotation as sulfur-utilization genes. Arrows above the columns indicate conditions in which the displayed gene groups show significant gene-expression changes according to the K-S test, FDR correction for multiple testing at a p-value of 0.001.

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