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. 2012 Oct 3;13(10):R83. doi: 10.1186/gb-2012-13-10-r83

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Copyright ©2012 Hansen et al.; licensee BioMed Central Ltd.

This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Evaluation of the differentialy methylated regions finder. (a) Specificity plotted against sensitivity for the BSmooth DMR finder (black) and a method based on Fisher's exact test (orange) applied to the Hansen data. The gold-standard definition is based on mean differences. Details are explained in the text. (b) As (a), but using a gold-standard definition accounting for biological variation. (c) Comparison based on the association between gene expression and methylation changes in the Tung data. For DMR lists of varying sizes (x-axis), the log2-odds ratios of finding a DMR within 5 kb of the transcription start site of a differentially expressed gene (FDR ≤5%) compared to genes not differentially expression (FDR ≥25%) are shown. FP, false positive; TP, true positive.