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Nearest Neighbor Networks: clustering expression data based on gene neighborhoods.
Huttenhower C, Flamholz AI, Landis JN, Sahi S, Myers CL, Olszewski KL, Hibbs MA, Siemers NO, Troyanskaya OG, Coller HA.
BMC Bioinformatics. 2007 Jul 12;8:250.PMID: 17626636 [PubMed - indexed for MEDLINE]Related articlesFree article
Knowledge-assisted recognition of cluster boundaries in gene expression data.
Okada Y, Sahara T, Mitsubayashi H, Ohgiya S, Nagashima T.
Artif Intell Med. 2005 Sep-Oct;35(1-2):171-83.PMID: 16054350 [PubMed - indexed for MEDLINE]Related articles
Influence of microarrays experiments missing values on the stability of gene groups by hierarchical clustering.
de Brevern AG, Hazout S, Malpertuy A.
BMC Bioinformatics. 2004 Aug 23;5:114.PMID: 15324460 [PubMed - indexed for MEDLINE]Related articlesFree article
Adaptive quality-based clustering of gene expression profiles.
De Smet F, Mathys J, Marchal K, Thijs G, De Moor B, Moreau Y.
Bioinformatics. 2002 May;18(5):735-46.PMID: 12050070 [PubMed - indexed for MEDLINE]Related articlesFree article
FLAME, a novel fuzzy clustering method for the analysis of DNA microarray data.
Fu L, Medico E.
BMC Bioinformatics. 2007 Jan 4;8:3.PMID: 17204155 [PubMed - indexed for MEDLINE]Related articlesFree article
A comparison of four clustering methods for brain expression microarray data.
Richards AL, Holmans P, O'Donovan MC, Owen MJ, Jones L.
BMC Bioinformatics. 2008 Nov 25;9:490.PMID: 19032745 [PubMed - indexed for MEDLINE]Related articlesFree article
Fuzzy c-means clustering with prior biological knowledge.
Tari L, Baral C, Kim S.
J Biomed Inform. 2009 Feb;42(1):74-81. Epub 2008 May 24.PMID: 18595779 [PubMed - indexed for MEDLINE]Related articles
Beyond synexpression relationships: local clustering of time-shifted and inverted gene expression profiles identifies new, biologically relevant interactions.
Qian J, Dolled-Filhart M, Lin J, Yu H, Gerstein M.
J Mol Biol. 2001 Dec 14;314(5):1053-66.PMID: 11743722 [PubMed - indexed for MEDLINE]Related articles
Detecting clusters of different geometrical shapes in microarray gene expression data.
Kim DW, Lee KH, Lee D.
Bioinformatics. 2005 May 1;21(9):1927-34. Epub 2005 Jan 12.PMID: 15647300 [PubMed - indexed for MEDLINE]Related articlesFree article
Recursive cluster elimination (RCE) for classification and feature selection from gene expression data.
Yousef M, Jung S, Showe LC, Showe MK.
BMC Bioinformatics. 2007 May 2;8:144.PMID: 17474999 [PubMed - indexed for MEDLINE]Related articlesFree article
A dynamically growing self-organizing tree (DGSOT) for hierarchical clustering gene expression profiles.
Luo F, Khan L, Bastani F, Yen IL, Zhou J.
Bioinformatics. 2004 Nov 1;20(16):2605-17. Epub 2004 May 6.PMID: 15130935 [PubMed - indexed for MEDLINE]Related articlesFree article
Biclustering of microarray data with MOSPO based on crowding distance.
Liu J, Li Z, Hu X, Chen Y.
BMC Bioinformatics. 2009 Apr 29;10 Suppl 4:S9.PMID: 19426457 [PubMed - indexed for MEDLINE]Related articlesFree article
Microarray data mining using landmark gene-guided clustering.
Chopra P, Kang J, Yang J, Cho H, Kim HS, Lee MG.
BMC Bioinformatics. 2008 Feb 11;9:92.PMID: 18267003 [PubMed - indexed for MEDLINE]Related articlesFree article
Comparisons of graph-structure clustering methods for gene expression data.
Fang Z, Liu L, Yang J, Luo QM, Li YX.
Acta Biochim Biophys Sin (Shanghai). 2006 Jun;38(6):379-84.PMID: 16761095 [PubMed - indexed for MEDLINE]Related articlesFree article
Defining transcription modules using large-scale gene expression data.
Ihmels J, Bergmann S, Barkai N.
Bioinformatics. 2004 Sep 1;20(13):1993-2003. Epub 2004 Mar 25.PMID: 15044247 [PubMed - indexed for MEDLINE]Related articlesFree article
A phase synchronization clustering algorithm for identifying interesting groups of genes from cell cycle expression data.
Kim CS, Bae CS, Tcha HJ.
BMC Bioinformatics. 2008 Jan 28;9:56.PMID: 18221564 [PubMed - indexed for MEDLINE]Related articlesFree article
Bayesian infinite mixture model based clustering of gene expression profiles.
Medvedovic M, Sivaganesan S.
Bioinformatics. 2002 Sep;18(9):1194-206.PMID: 12217911 [PubMed - indexed for MEDLINE]Related articlesFree article
Time-synchronized clustering of gene expression trajectories.
Tang R, Müller HG.
Biostatistics. 2009 Jan;10(1):32-45. Epub 2008 May 22.PMID: 18502728 [PubMed - indexed for MEDLINE]Related articles
Using text analysis to identify functionally coherent gene groups.
Raychaudhuri S, Schütze H, Altman RB.
Genome Res. 2002 Oct;12(10):1582-90.PMID: 12368251 [PubMed - indexed for MEDLINE]Related articlesFree article
Identifying biological pathways via phase decomposition and profile extraction.
Zhang Y, Deng Z.
Comput Syst Bioinformatics Conf. 2006:269-80.PMID: 17369645 [PubMed - indexed for MEDLINE]Related articlesFree article
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