Extending bicluster analysis to annotate unclassified ORFs and predict novel functional modules using expression data

Table 1 Comparative cross validation of BALBOA with majority & unanimous voting kNN.

MIPS Category	KNN		UkNN		BALBOA
Eisen	P	R	P	R	P	R
Metabolism (01)	0.46	0.43	0.50	0.00	0.54	0.01
Energy (02)	0.48	0.15	0.63	0.01	0.57	0.05
Cell Cycle (10)	0.48	0.41	0.86	0.03	0.89	0.02
Transcription (11)	0.47	0.36	0.13	0.00	0.58	0.03
Protein Synthesis (12)	0.51	0.52	0.97	0.24	1.00	0.08
Protein Fate (14)	0.38	0.26	0.94	0.01	0.91	0.02
Transp. Elements (38)	0.29	0.57	0.25	0.09	0.50	0.43
Cell Fate (43)	0.30	0.09	0.00	0.00	0.58	0.05
Mean	0.42	0.35	0.53	0.05	0.70	0.09
Hughes	P	R	P	R	P	R
Metabolism (01)	0.47	0.50	0.85	0.03	0.85	0.04
Energy (02)	0.59	0.16	0.98	0.03	0.76	0.08
Cell Cycle (10)	0.49	0.24	0.85	0.01	0.57	0.03
Transcription (11)	0.44	0.43	0.62	0.01	0.81	0.03
Protein Synthesis (12)	0.52	0.47	0.95	0.18	1.00	0.05
Protein Fate (14)	0.39	0.24	0.50	0.00	0.47	0.02
Prot. Bind. Func. (16)	0.29	0.14	0.00	0.00	0.57	0.01
Cell Transport (20)	0.36	0.20	0.80	0.02	0.50	0.03
Transp. Elements (38)	0.38	0.48	0.00	0.00	0.77	0.47
Biogen. Cell. Comp. (42)	0.32	0.15	0.41	0.01	0.74	0.04
Mean	0.43	0.31	0.60	0.03	0.70	0.09
Gasch	P	R	P	R	P	R
Metabolism (01)	0.46	0.49	0.88	0.01	0.83	0.03
Energy (02)	0.52	0.20	0.94	0.05	0.83	0.09
Cell Cycle (10)	0.46	0.29	0.75	0.00	0.58	0.03
Transcription (11)	0.45	0.37	0.64	0.00	0.74	0.06
Protein Synthesis (12)	0.50	0.55	0.95	0.31	0.98	0.17
Protein Fate (14)	0.40	0.29	1.00	0.03	0.93	0.01
Cell Transport (20)	0.36	0.20	0.25	0.00	0.66	0.01
Transp. Elements (38)	0.79	0.52	0.00	0.15	0.75	0.50
Biogen. Cell. Comp. (42)	0.33	0.12	0.38	0.00	0.60	0.03
Mean	0.48	0.34	0.64	0.06	0.77	0.10

The highest precisons for each MIPS category in each dataset evaluated are shown in bold. BALBOA achvieves the highest mean precision over all MIPS categories in each dataset. P = Pecision, R = Recall.

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