title: Defining an informativeness metric for clustering gene expression data.
abstract: BACKGROUND
  Unsupervised 'cluster' analysis is an invaluable tool for exploratory microarray data analysis, as it organizes the data into groups of genes or samples in which the elements share common patterns. Once the data are clustered, finding the optimal number of informative subgroups within a dataset is a problem that, while important for understanding the underlying phenotypes, is one for which there is no robust, widely accepted solution.
  
  
  RESULTS
  To address this problem we developed an 'informativeness metric' based on a simple analysis of variance statistic that identifies the number of clusters which best separate phenotypic groups. The performance of the informativeness metric has been tested on both experimental and simulated datasets, and we contrast these results with those obtained using alternative methods such as the gap statistic.
  
  
  BACKGROUND
  The method has been implemented in the Bioconductor R package attract; it is also freely available from http://compbio.dfci.harvard.edu/pubs/attract_1.0.1.zip.
  
  
  BACKGROUND
  jess@jimmy.harvard.edu; johnq@jimmy.harvard.edu
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA. jess@jimmy.harvard.edu
authors.forename: Jessica C
authors.initials: JC
authors.lastname: Mar
authors.forename: Christine A
authors.initials: CA
authors.lastname: Wells
authors.forename: John
authors.initials: J
authors.lastname: Quackenbush
mesh_terms: D016000:Cluster Analysis; D003627:Data Interpretation, Statistical; D015870:Gene Expression; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis