Explore
View the clustered data
Figures
View figures from the paper
Supplement
Additional information
Help
Get help interpreting
the data  
Download Data

Download Software

People

*** 12-12-02: A bug was discovered in this display that had caused some of the genes in a few of the clusters to be incorrectly displayed. While the gene expression data were correctly displayed for each gene, some of the memberships were incorrectly displayed. The error has been corrected, and we are sorry for the error.

Sorry! This view is no longer available

Explore the complete dataset.

The fuzzy k-means clustering results can be viewed with FuzzyExplorer, a visualization tool based on the program GeneExplorer developed by Christian Rees.

The gene expression data are shown in a colorized format, in which each row represents the relative transcript abundance of a given gene and each column indicates the relative transcript abundance of many genes as measured on one microarray. A red color indicates that the gene was induced in response to the conditions indicated, green indicates that the gene was repressed under those conditions, black indicates that there was no detectible change in expression, and gray represents missing data.

Fuzzy k-means clustering of gene expression data identifies a list of cluster centroids, each of which represents a group of similarly expressed genes; in addition, the method relates all of the genes in the dataset to each centroid with a membership score.

  • The left panel of the FuzzyExplorer viewer shows a zoomed-out, or thumbnail, image of the gene expression patterns of each of the identified centroid patterns.
  • Each centroid can be viewed in the Zoom panel to the right by clicking on the centroid in the thumbnail panel on the left. The selected centroid will be displayed, along with the top 10 genes with the highest membership to that centroid.
  • The membership for each of the selected genes within each cluster is displayed in the gene annotation field, next to the gene's expression pattern
  • The gene clusters can be expanded and collapsed by entering a new membership cutoff for the desired cluster in the Toolbar window above.
  • A given gene or key word can also be searched using the search feature in the toolbar.
  • To view the top centroids to which the selected gene belongs, click on the gene's expression bar in the Zoom panel - a list of the top centroids will be displayed, in descending order of the gene's membership to each centroid. In addition, the query gene's membership to each of the centroids is displayed in the annotation field, next to the centroid gene expression pattern

     

    		•