Mar 212014
 

EnsemblQDB

:: DESCRIPTION

Ensembl query-based biclustering : Query-based biclustering techniques allow interrogating a gene expression compendium with a given gene or gene list. They do so by searching for genes in the compendium that have a profile close to the average expression profile of the genes in this query-list. As it can often not be guaranteed that the genes in a long query-list will all be mutually coexpressed, it is advisable to use each gene separately as a query. This approach, however, leaves the user with a tedious post-processing of partially redundant biclustering results. The fact that for each query-gene multiple parameter settings need to be tested in order to detect the ?most optimal bicluster size? adds to the redundancy problem. To aid with this post-processing, we developed an ensemble approach to be used in combination with query-based biclustering.

::DEVELOPER

 Prof. Dr. Kathleen Marchal 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • Matlab

:: DOWNLOAD

 EnsemblQDB

:: MORE INFORMATION

Citation:

De Smet, R. and Marchal, K. (2011).
An ensemble biclustering approach for querying gene expression compendia with experimental lists.
Bioinformatics. 2011 Jul 15;27(14):1948-56.

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