Identification of novel DNA repair proteins via primary sequence, secondary structure, and homology

BMC Bioinformatics

Table 6 Classification: Nucleotide Excision Repair

Seq. Similarity	Pos/Neg (% Pos)	Method	AUC	TPR-0	TPR-1%	TPR-5%
		P	0.90	37.47	50.69	66.12
		PS	0.91	35.54	56.75	71.07
50%	363/1467 (20%)	PF	0.86	22.04	41.60	56.47
		BLAST	0.95	53.99	84.85	88.43
		PH	0.94	2.75	43.25	79.89
		PSH	0.95	4.68	56.75	87.88
		P	0.98	81.58	87.55	92.23
		PS	0.98	80.23	88.83	92.45
90%	1325/3320 (29%)	PF	0.88	25.89	39.77	63.77
		BLAST	0.98	0.00	94.19	97.13
		PH	0.98	4.15	75.02	95.25
		PSH	0.98	1.43	84.53	96.45
		P	0.98	37.65	89.27	94.16
		PS	0.98	65.19	90.41	93.16
0%	2106/5241 (29%)	PF	0.88	21.13	39.55	54.37
		BLAST	0.97	0.00	90.03	96.96
		PH	0.97	3.23	64.15	82.15
		PSH	0.98	11.49	79.49	91.36

Experiments using Nucleotide Excision Repair (GO:0006289) as the type of protein to identify. "Pos/Neg" shows the number of NER-related and non-related proteins for a particular sequence similarity.

ISSN: 1471-2105