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. 2015 May 9;5:21–24. doi: 10.1016/j.gdata.2015.05.002

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© 2015 The Authors

This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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Fig. 2 — Quality controls and analysis of microarrays.

A) and B) The quality of arrays for CD11b⁺ cDC, LysoDC and LysoMac triplicates was assessed using Relative Log Expression (RLE; A) and Normalized Unscaled Standard Error (NUSE; B) boxplots. C) Histograms (upper row) and boxplots (lower row) of log2 transformed probe intensity before (raw data, left column) and after RMA processing (right column). D) Hierarchical clustering by Pearson correlation distance and Ward's aggregation showed the clustering of the replicates and the close genetic relationship between LysoDC and LysoMac. E) Principal component analysis of replicates. The first principal component (PC1) allowed the distinction between CD11b⁺ cDC and monocyte-derived cells whereas the second principal component (PC2) distinguished LysoDC from LysoMac with CD11b⁺ cDC replicates clustering in between. The percentage of variability explained by each component is indicated in brackets.