Table 3. Performance comparisons for eukaryotic protein subcellular location prediction method based on the iLoc8897 dataset.

Subcellular location	Euk-mPLoc 2.0 (2010) (Chou and Shen 2010)	iLoc-Euk (2011) (Chou et al. 2011)	LIBSVM		KNN		The proposed method
	Jackknife	Jackknife	Jackknife		Jackknife		Jackknife
	Accuracy (%)	Accuracy (%)	Accuracy (%)	MCC	Accuracy (%)	MCC	Accuracy (%)	MCC
Acrosome	7.14	7.14	57.14	0.8526	71.43	0.8449	64.29	0.8659
Cell membrane	64.85	80.49	84.52	0.9123	96.67	0.8558	85.09	0.9121
Cell wall	12.24	16.33	91.84	0.8750	85.71	0.8981	91.84	0.8750
Centrosome	22.92	69.79	86.17	0.8650	92.55	0.6513	88.30	0.8688
Chloroplast	82.60	87.79	99.73	0.9943	99.73	0.9873	99.73	0.9943
Cyanelle	59.49	64.56	100.00	1.0000	98.73	1.0000	100.00	1.0000
Cytoplasm	64.87	76.72	45.24	0.9399	90.34	0.8198	45.70	0.9361
Cytoskeleton	31.65	27.34	50.36	0.7629	6.47	0.8318	49.64	0.7640
Endoplasmic reticulum	76.15	89.06	87.72	0.9529	84.65	0.9457	87.72	0.9542
Endosome	4.88	7.32	21.95	0.7272	19.51	0.8163	21.95	0.7497
Extracell	81.87	90.46	91.82	0.9812	88.64	0.9902	91.92	0.9824
Golgi apparatus	22.05	63.39	76.59	0.8997	46.83	0.9633	77.38	0.9131
Hydrogenosome	20.00	0.00	100.00	1.0000	70.00	1.0000	100.00	1.0000
Lysosome	45.61	31.58	87.72	0.8813	57.89	0.9851	87.72	0.8813
Melanosome	0.00	2.13	76.60	0.9474	14.89	1.0000	76.60	0.9474
Microsome	7.69	0.00	69.23	0.8579	15.38	1.0000	69.23	0.8579
Mitochondrion	70.00	77.05	78.03	0.9749	80.66	0.9688	78.20	0.9750
Nucleus	64.70	87.93	93.69	0.8865	50.65	0.9943	93.60	0.8873
Peroxisome	50.91	54.55	100.00	0.9650	74.55	1.0000	100.00	0.9650
Spindle pole body	33.82	66.18	95.59	0.9110	4.41	1.0000	95.59	0.9181
Synapse	0.00	38.30	80.85	0.7918	25.53	0.8399	80.85	0.7918
Vacuole	59.41	71.76	95.88	0.9399	80.59	0.9819	93.53	0.9606
Overall accuracy	64.17	79.06	78.01	-	74.70	-	78.17	-
	-	71.27	75.54	-	72.84	-	75.64	-