SOMEA: self-organizing map based extraction algorithm for DNA motif identification with heterogeneous model

BMC Bioinformatics

Table 1 Evaluation results with comparisons

	SOMEA			SOMBRERO			MEME			ALIGNACE			WEEDER
R	P	F	R	P	F	R	P	F	R	P	F	R	P	F
CRP	0.91	0.89	0.9	0.83	0.43	0.56	0.59	0.88	0.69	0.83	0.98	0.9	0.75	0.83	0.79
GCN4	0.69	0.45	0.54	0.8	0.41	0.53	0.52	0.52	0.52	0.61	0.62	0.6	0.64	0.87	0.73
ERE	0.74	0.58	0.65	0.8	0.59	0.67	0.72	0.82	0.77	0.75	0.77	0.76	0.76	0.54	0.63
MEF2	0.81	0.99	0.89	0.35	0.22	0.27	0.92	0.8	0.85	0.86	0.87	0.86	0.88	0.88	0.88
SRF	0.84	0.74	0.79	0.67	0.83	0.74	0.87	0.72	0.79	0.83	0.71	0.77	0.83	0.71	0.76
CREB	0.89	0.67	0.77	0.83	0.43	0.56	0.59	0.88	0.69	0.52	0.66	0.57	0.79	0.71	0.75
E2F	0.82	0.64	0.71	0.76	0.67	0.71	0.68	0.64	0.65	0.75	0.68	0.71	0.89	0.67	0.76
MYOD	0.66	0.39	0.49	0.5	0.32	0.39	0.23	0.38	0.27	0.34	0.31	0.32	0.43	0.5	0.46
Average	0.80	0.67	0.72	0.69	0.49	0.55	0.64	0.71	0.65	0.69	0.70	0.69	0.75	0.71	0.72

ISSN: 1471-2105