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Figure 2 | Plant Methods

Figure 2

From: Using genomic DNA-based probe-selection to improve the sensitivity of high-density oligonucleotide arrays when applied to heterologous species

Figure 2

(a) – (d) Probe-set signals of genes in control (P-replete) Brassica oleracea var. alboglabra cv. A12DHd estimated following probe-selection compared to probe-set signals estimated without probe-selection. Data are presented using probe mask files generated with gDNA hybridisation intensity thresholds of 50, 100, 200 and 400 respectively ((a) – (d)). Mean values (e) and ranked coefficient of variation (f) of probe-set signals of control (P-replete) B. oleracea as a function of the gDNA hybridisation intensity thresholds used to generate probe mask files for the transcriptome analysis. In (f), the gDNA hybridisation intensity threshold used to generate probe mask files is indicated by different coloured lines: red (gDNA hybridisation intensity threshold = 0), green (50), yellow (100), blue (150), pink (200), cyan (300), black (400), grey (500), dark red (600), dark green (700), dark pink (800), dark cyan (900), dark yellow (1000). In all panels, total RNA samples were extracted from the shoots of hydroponically-grown control (P-replete) B. oleracea (n = 4).

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