Multiclass classification of microarray data samples with a reduced number of genes

BMC Bioinformatics

Table 2 The overall number of genes selected by OAA and ECOC classifiers

								p-values^a
Dataset	M	N	B-ECOC	B-OAA	G-ECOC(F)	G-OAA(G)	F ≠ G	F < G	MW
200 Montecarlo 4:1 train-test partitions at η = 5
Lymphoma	3	NA	NA	4	NA	22	NA	NA	NA
SRCBT	4	9	14.22	6	37	23	< 2.2e-16	< 2.2e-16	1
Brain	5	9	28.1	19	177	109.5	5.08e-05	2.54e-05	0.99975
NCI60	8	9	45.11	34	310	326	9.31e-07	0.27804	0.07651
Staunton	9	12	46	34.11	387	296	9.91e-08	4.95e-08	0.99993
GCM RM	11	11	142	36	800	365.5	< 2.2e-16	2.76e-08	1
Su	11	13	126	62	1056	916	5.36e-12	1.15e-24	0.99978
GCM	14	12	322	128	2096	1406	< 2.2e-16	< 2.2e-16	1
200 Montecarlo 4:1 train-test partitions at η = 10
Lymphoma	3	11	4.27	4	12	22	5.52e-08	1	9.85e-09
SRCBT	4	9	12.22	6	33	23	< 2.2e-16	< 2.2e-16	1
Brain	5	15	16.16	19	109.5	109.5	0.03970	0.01984	0.54495
NCI60	8	14	42.12	39	286.5	326	9.31e-07	0.95599	0.00105
Staunton	9	19	40.03	34.11	381.5	296	6.95e-10	3.48e-10	0.99997
GCM RM	11	12	72	36	570	365.5	< 2.2e-16	1.66e-19	1
Su	11	17	112	62	940	916	1.82e-10	9.11e-11	0.98387
GCM	14	12	322	128	2078	1406	< 2.2e-16	< 2.2e-16	1
200 Montecarlo 4:1 train-test partitions at η = 15
Lymphoma	3	11	4.26	4	12	22	3.05e-08	1	3.85e-09
SRCBT	4	9	12.22	6	33	23	< 2.2e-16	< 2.2e-16	1
Brain	5	18	16.06	19	105	109.5	0.03970	0.01984	0.15586
NCI60	8	16	36.15	39	251	326	9.31e-07	1	3.23e-05
Staunton	9	19	34.09	34.11	373.5	296	4.81e-09	2.41e-09	0.99989
GCM RM	11	12	72	36	561	365.5	< 2.2e-16	1.66e-19	1
Su	11	17	112	62	924.5	916	1.34e-09	6.69e-10	0.97006
GCM	14	12	322	128	2066	1406	< 2.2e-16	< 2.2e-16	1

The number of genes selected by OAA and ECOC classifiers of size at most ⌈η·log₂M⌉ under bounded optimum S 2N gene selection over 200 Montecarlo 4:1 train-test partitions. M and n respectively denote the median number of binary classifiers at OAA and ECOC classifiers. B-ECOC and B-OAA respectively denote the median number of genes per binary SVM at ECOC and OAA classifiers. G-ECOC and G-OAA respectively denote the median overall number of genes selected at ECOC and OAA classifiers. G-ECOC and G-OAA are denoted as F and G for purposes of KS tests, respectively.
^a p-values of two-sided KS tests, one-sided KS tests and one-sided MW tests. The alternative hypothesis of two-sided KS tests is "the number of genes selected by ECOC classifiers (F) is different from that of OAA classifiers (G)", i.e., the relationship between corresponding CDFs is F ≠ G. The alternative hypothesis for one sided KS tests is "the number of genes selected by ECOC classifiers (F) is greater than that OAA classifiers (G)", i.e., the relationship between corresponding CDFs is F <G. The alternative hypothesis of one-sided MW tests is "the median number of genes selected by ECOC classifiers is less than that of OAA classifiers".

ISSN: 1471-2105