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HAMSTER: visualizing microarray experiments as a set of minimum spanning trees.

Wan R, Kiseleva L, Harada H, Mamitsuka H, Horton P.

Source Code Biol Med. 2009 Nov 20;4:8.PMID: 19925686 [PubMed - in process]Related articlesFree article

Minimum spanning trees for gene expression data clustering.

Xu Y, Olman V, Xu D.

Genome Inform. 2001;12:24-33.PMID: 11791221 [PubMed - indexed for MEDLINE]Related articlesFree article

GEM-TREND: a web tool for gene expression data mining toward relevant network discovery.

Feng C, Araki M, Kunimoto R, Tamon A, Makiguchi H, Niijima S, Tsujimoto G, Okuno Y.

BMC Genomics. 2009 Sep 3;10:411.PMID: 19728865 [PubMed - indexed for MEDLINE]Related articlesFree article

Parallel clustering algorithm for large data sets with applications in bioinformatics.

Olman V, Mao F, Wu H, Xu Y.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Apr-Jun;6(2):344-52.PMID: 19407357 [PubMed - indexed for MEDLINE]Related articles

R/BHC: fast Bayesian hierarchical clustering for microarray data.

Savage RS, Heller K, Xu Y, Ghahramani Z, Truman WM, Grant M, Denby KJ, Wild DL.

BMC Bioinformatics. 2009 Aug 6;10:242.PMID: 19660130 [PubMed - indexed for MEDLINE]Related articlesFree article

PathCluster: a framework for gene set-based hierarchical clustering.

Kim TM, Yim SH, Jeong YB, Jung YC, Chung YJ.

Bioinformatics. 2008 Sep 1;24(17):1957-8. Epub 2008 Jul 15.PMID: 18628289 [PubMed - indexed for MEDLINE]Related articlesFree article

Evaluation of a gene information summarization system by users during the analysis process of microarray datasets.

Yang J, Cohen A, Hersh W.

BMC Bioinformatics. 2009 Feb 5;10 Suppl 2:S5.PMID: 19208193 [PubMed - indexed for MEDLINE]Related articlesFree article

A temporal precedence based clustering method for gene expression microarray data.

Krishna R, Li CT, Buchanan-Wollaston V.

BMC Bioinformatics. 2010 Jan 30;11(1):68. [Epub ahead of print]PMID: 20113513 [PubMed - as supplied by publisher]Related articlesFree article

VisHiC--hierarchical functional enrichment analysis of microarray data.

Krushevskaya D, Peterson H, Reimand J, Kull M, Vilo J.

Nucleic Acids Res. 2009 Jul 1;37(Web Server issue):W587-92. Epub 2009 May 29.PMID: 19483095 [PubMed - indexed for MEDLINE]Related articlesFree article

Interactive visualization of clusters in microarray data: an efficient tool for improved metabolic analysis of E. coli.

Scharl T, Striedner G, Pötschacher F, Leisch F, Bayer K.

Microb Cell Fact. 2009 Jul 15;8:37.PMID: 19604371 [PubMed - in process]Related articlesFree article

Analysis of nonlinear relations between expression profiles by the principal curves of oriented-points approach.

Huerta M, Cedano J, Querol E.

J Bioinform Comput Biol. 2008 Apr;6(2):367-86.PMID: 18464328 [PubMed - indexed for MEDLINE]Related articles

Molecular Property eXplorer: a novel approach to visualizing SAR using tree-maps and heatmaps.

Kibbey C, Calvet A.

J Chem Inf Model. 2005 Mar-Apr;45(2):523-32.PMID: 15807518 [PubMed - indexed for MEDLINE]Related articles

Global considerations in hierarchical clustering reveal meaningful patterns in data.

Varshavsky R, Horn D, Linial M.

PLoS One. 2008 May 21;3(5):e2247.PMID: 18493326 [PubMed - indexed for MEDLINE]Related articlesFree article

A flexible representation of omic knowledge for thorough analysis of microarray data.

Hasegawa Y, Seki M, Mochizuki Y, Heida N, Hirosawa K, Okamoto N, Sakurai T, Satou M, Akiyama K, Iida K, Lee K, Kanaya S, Demura T, Shinozaki K, Konagaya A, Toyoda T.

Plant Methods. 2006 Mar 2;2:5.PMID: 16509996 [PubMed - in process]Related articlesFree article

An algorithm to infer similarity among cell types and organisms by examining the most expressed sequences.

Pinto SA, Ortega JM.

Genet Mol Res. 2008 Sep 30;7(3):933-47.PMID: 18949711 [PubMed - indexed for MEDLINE]Related articlesFree article

ETE: a python Environment for Tree Exploration.

Huerta-Cepas J, Dopazo J, Gabaldón T.

BMC Bioinformatics. 2010 Jan 13;11:24.PMID: 20070885 [PubMed - in process]Related articlesFree article

Species tree inference by minimizing deep coalescences.

Than C, Nakhleh L.

PLoS Comput Biol. 2009 Sep;5(9):e1000501. Epub 2009 Sep 11.PMID: 19749978 [PubMed - indexed for MEDLINE]Related articlesFree article

Fast Gene Ontology based clustering for microarray experiments.

Ovaska K, Laakso M, Hautaniemi S.

BioData Min. 2008 Nov 21;1(1):11.PMID: 19025591 [PubMed - in process]Related articlesFree article

A Condition-Enumeration Tree method for mining biclusters from DNA microarray data sets.

Chen JR, Chang YI.

Biosystems. 2009 Jul;97(1):44-59. Epub 2009 Apr 23.PMID: 19393714 [PubMed - indexed for MEDLINE]Related articles

Application of gene shaving and mixture models to cluster microarray gene expression data.

Do KA, McLachlan GJ, Bean R, Wen S.

Cancer Inform. 2007;5:25-43. Epub 2007 Apr 2.PMID: 19390667 [PubMed - in process]Related articlesFree article