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Fig. 3 | Genome Biology

Fig. 3

From: Identification of high-confidence RNA regulatory elements by combinatorial classification of RNA–protein binding sites

Fig. 3

NMF inferred RBP groups from multiple RBPs. a Hierarchical clustering of the Spearman correlation coefficients between every two RBPs. b Criteria for estimating rank R in NMF. The cophenetic correlation coefficient (CPCC) and dispersion coefficient (DC) quantitatively measure the stability of clustering associated with each rank R, based on a consensus matrix. CPCC and DC scores are calculated in 10, 30, 50, 80, and 100 runs. Each point represents the mean value; up/down whisker represents the max/min value. c The average connectivity matrix over 30 factorization runs. d Eighteen RBP groups were inferred from 48 RBPs, supported by known physical interactions derived from GeneMANIA database. The p value was estimated from 10,000 random RBP sets for each group. Heatmap shows the weights of each RBP in each group, which were derived from the coefficient matrix. The values of each column are scaled (0 – 1)

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Genome Biology

ISSN: 1474-760X

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