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The Self-Organizing Map (SOM) [4] is one of the best known unsupervised methods for data visualization and clustering [5, 6].
Correlation analysis and the use of advanced network visualization and clustering techniques go beyond standard pairwise hierarchical approaches in defining coexpression relationships between genes.
Visualization and clustering were based on log2 fold enrichment values instead of directly on fold enrichment values due to the relatively large range of fold enrichment values across all motifs (typically between 1 and 8).
We have used this array to generate an expression atlas for the pig, comparable to the human/mouse expression atlases, and, using advanced visualization and clustering analysis techniques, we have identified networks of co-expressed genes.
We showed through visualization and clustering that both the gene expression and the projection targets data demonstrated significant levels of spatial autocorrelation that needs to be accounted for in the integrative analysis.
Visualization and clustering of data were conducted using MEV [ 47].
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Through a graphical user interface, one can map a set of realizations and forward transfer function responses into a multidimensional scaling (MDS) space where visualization utilities, and clustering techniques are available.
Tree representations are also valuable for classification and clustering visualization of biological data.
GAP is a Java-designed exploratory data analysis (EDA) software for matrix visualization (MV) and clustering of high-dimensional data sets.
Visualization and hierarchical clustering of microarray data, using Euclidean Distance metrics and Average Linkage Clustering, was performed in MEV using algorithms developed by Eisen et al. [ 46].
Visualization and hierarchical clustering of microarray data, using Euclidean Distance metrics and Average Linkage Clustering, was performed in MEV using algorithms developed by Eisen et al. [ 92].
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