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Fig. 2 | Genome Medicine

Fig. 2

From: Network reconstruction for trans acting genetic loci using multi-omics data and prior information

Fig. 2

Method comparison results. A Results of simulation study: y-axis shows the Matthews correlation coefficient (MCC) as compared to the simulated ground truth; x-axis indicates increasing sample size from left to right; colors indicate different inference methods. B Similar to A, but x-axis indicates increasing errors in the prior matrix from left to right for N = 612 samples. Group (‘rbinom’) indicates uniform prior set to reflect degree distribution of true graph. C MCC (y-axis) between networks inferred on KORA and LOLIPOP data for same locus for all methods (x-axis). D contrasts MCC across cohorts using TF expression (dark gray) versus using substituted TFAs (light gray). Boxplots show medians (horizontal line) and first and third quartiles (lower/upper box borders). Whiskers show \(1.5 * IQR\) (inter-quartile range); for B, dots depict individual results, and for C, stars indicate significant difference between expression/TFA results for each method (Wilcoxon test, *: \(P \le 0.05\), **: \(P \le 0.01\), ***: \(P \le 0.001\), ****: \(P \le 0.0001\))

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