BioMed Research International / 2009 / Article / Fig 4

Methodology Report

Automation of cDNA Synthesis and Labelling Improves Reproducibility

Figure 4

Dendrogram and heat maps of interplatform correlations. (a) is based on the 12091 probes common to all platforms (based on the mapping procedure in the MAQC study). A distinct clustering of platforms based on identical probes manufactured by Operon is apparent (KTH_Auto, KTH_Man, NCI.1–3). The one-colour platforms (GEH, ABI, AG1, ILM, AFX) were generally more highly correlated than two-colour platforms (NMC, NCI, BIO, KTH). (b) is based on a subset 906 probes for which TaqMan-based relative expression levels are available. Generally, the one-colour platforms are clustered closer to the TaqMan experiment. Interestingly, the NCI.4 experiment is positioned somewhat ambiguously in the two dendrograms, possibly indicating some uncertainty in the dendrograms.
396808.fig.004a
(a)
396808.fig.004b
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