Comprehensive evaluation of matrix factorization methods for the analysis of DNA microarray gene expression data

Kim, Mi Hyeon; Seo, Hwa Jeong; Joung, Je-Gun; Kim, Ju Han

doi:10.1186/1471-2105-12-S13-S8

BMC Bioinformatics

Table 1 Class Assignment of Acute Myelogenous Leukemia (AML) and Acute Lymphoblastic Leukemia (ALL)

From: Comprehensive evaluation of matrix factorization methods for the analysis of DNA microarray gene expression data

	Kmeans		^*SVD		^*PCA		^*ICA		^*NMF		^*SNMF		^*BSNMF		^*Voting
	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)	(K=2)	(K=3)
ALL_19769_B.cell ALL_23953_B.cell ALL_28373_B.cell ALL_9335_B.cell ALL_9692_B.cell ALL_14749_B.cell ALL_17281_B.cell ALL_19183_B.cell ALL_20414_B.cell ALL_21302_B.cell ALL_549_B.cell ALL_17929_B.cell ALL_20185_B.cell ALL_11103_B.cell ALL_18239_B.cell ALL_5982_B.cell ALL_7092_B.cell ALL_R11_B.cell ALL_R23_B.cell ALL_16415_T.cell ALL_19881_T.cell ALL_9186_T.cell ALL_9723_T.cell ALL_17269_T.cell ALL_14402_T.cell ALL_17638_T.cell ALL_22474_T.cell AML_12 AML_13 AML_14 AML_16 AML_20 AML_1 AML_2 AML_3 AML_5 AML_6 AML_7	^L L L L L L L L L L L L L L L L L L L L L L L L L L L L L ^M M L L L M L L M	^B B B B B B B B B B B B B B B B B B B ^T T T T T T T T B B M M B B B M B B M	M L M M M M L L M L M M L M L L L L M L L L L L L L L L L L L M M L L M L L	B T M B B B M T M T B M M B M T M M B T T T T M T T M M M M T B B M T B M T	L L L L L L L L L L L L L L L L L L L L M M M L M L M L L L L L L L L L L L	M B M B M M M M B B M M M B M B M M B B B T T T B B B M B M M M M M M M M M	L L L L L M L L L L L L L L L L M L L L L L L L L L L M L M M M M M M M M M	B B B B B B B B B B B B B B B B B B B B B T T T B B T M B M M M M M M M M M	L L L L L M L L L L L L L L L L M L L L L L L L L L L M M M M M M M M M M M	B B B B B M B B B T B B B B B B M B B T T T T T T T T M M M M M M M M M M M	L L L L L L L L L L L L L L L L L L L L L L L L L L L M L M M M M M M M M M	B B B B B B B B B T B B B B B B B B B T T T T T T T T M B M M M M M M M M M	L L L L L L L L L L L L L L L L L L L L L L L L L L L M L M M M M M M M M M	B B B B B B B B B B B B B B B B B B B T T T T T T T T M B M M M M M M M M M	L L L L L L L L L L L L L L L L L L L L L L L L L L L M L M M M M M M M M M	B B B B B B B B B B B B B B B B B B B T T T T T T T T M B M M M M M M M M M
Error Count	7	7	18	20	16	18	3	5	2	3	1	2	1	1	1	1

Class Assignment of Acute Myelogenous Leukemia (AML) and Acute Lymphoblastic Leukemia (ALL) at K=2 and K=3.
* SVD: singular value decomposition, PCA: principal component analysis, ICA: independent component analysis, NMF: non-negative matrix factorization, SNMF: sparse non-negative matrix factorization,
BSNMF: bi-directional non-negative matrix factorization, Voting: Voting class
** L: ALL, M: AML, B: ALL_B cell, T: ALL_T cell
Bold-faced: misclassified samples

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ISSN: 1471-2105

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