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Integrated analysis of gene expression by Association Rules Discovery.
Carmona-Saez P, Chagoyen M, Rodriguez A, Trelles O, Carazo JM, Pascual-Montano A.
BMC Bioinformatics. 2006 Feb 7;7:54.
PMID: 16464256 [PubMed - indexed for MEDLINE]
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Extracting gene expression patterns and identifying co-expressed genes from microarray data reveals biologically responsive processes.
Chou JW, Zhou T, Kaufmann WK, Paules RS, Bushel PR.
BMC Bioinformatics. 2007 Nov 2;8:427.
PMID: 17980031 [PubMed - indexed for MEDLINE]
Biclustering of gene expression data by Non-smooth Non-negative Matrix Factorization.
Carmona-Saez P, Pascual-Marqui RD, Tirado F, Carazo JM, Pascual-Montano A.
BMC Bioinformatics. 2006 Feb 17;7:78.
PMID: 16503973 [PubMed - indexed for MEDLINE]
Attribute clustering for grouping, selection, and classification of gene expression data.
Au WH, Chan KC, Wong AK, Wang Y.
IEEE/ACM Trans Comput Biol Bioinform. 2005 Apr-Jun;2(2):83-101. Erratum in: IEEE/ACM Trans Comput Biol Bioinform. 2007 Jan-Mar;4(1):157.
PMID: 17044174 [PubMed - indexed for MEDLINE]
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Integration of GO annotations in Correspondence Analysis: facilitating the interpretation of microarray data.
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ADGO: analysis of differentially expressed gene sets using composite GO annotation.
Nam D, Kim SB, Kim SK, Yang S, Kim SY, Chu IS.
Bioinformatics. 2006 Sep 15;22(18):2249-53. Epub 2006 Jul 12.
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Knowledge guided analysis of microarray data.
Fang Z, Yang J, Li Y, Luo Q, Liu L.
J Biomed Inform. 2006 Aug;39(4):401-11. Epub 2005 Sep 15.
PMID: 16214421 [PubMed - indexed for MEDLINE]
Methods for evaluating clustering algorithms for gene expression data using a reference set of functional classes.
Datta S, Datta S.
BMC Bioinformatics. 2006 Aug 31;7:397.
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Mining gene expression data by interpreting principal components.
Roden JC, King BW, Trout D, Mortazavi A, Wold BJ, Hart CE.
BMC Bioinformatics. 2006 Apr 7;7:194.
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WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data.
Yi M, Horton JD, Cohen JC, Hobbs HH, Stephens RM.
BMC Bioinformatics. 2006 Jan 19;7:30.
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Genome wide prediction of protein function via a generic knowledge discovery approach based on evidence integration.
Xiong J, Rayner S, Luo K, Li Y, Chen S.
BMC Bioinformatics. 2006 May 25;7:268.
PMID: 16725034 [PubMed - indexed for MEDLINE]
BioLattice: a framework for the biological interpretation of microarray gene expression data using concept lattice analysis.
Kim J, Chung HJ, Jung Y, Kim KK, Kim JH.
J Biomed Inform. 2008 Apr;41(2):232-41. Epub 2007 Nov 1.
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Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'.
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Combining transcriptional datasets using the generalized singular value decomposition.
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GARBAN: genomic analysis and rapid biological annotation of cDNA microarray and proteomic data.
MartÃnez-Cruz LA, Rubio A, MartÃnez-Chantar ML, Labarga A, Barrio I, Podhorski A, Segura V, Sevilla Campo JL, Avila MA, Mato JM.
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Construction of a reference gene association network from multiple profiling data: application to data analysis.
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THEA: ontology-driven analysis of microarray data.
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Knowledge-guided multi-scale independent component analysis for biomarker identification.
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