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Software - Proprietary:
Bayesian Decomposition

Synopsis:

Bayesian Decomposition has been designed in order to untangle interacting signals in many scientific areas, including microarray expression analysis.

Platforms available:

Solaris, Linux, and MacOS X

Download Procedure:

  1. Download the Materials Transfer Agreement (MTA)
  2. Read and understand the form
  3. Complete the top portion of the MTA with your
    • Name
    • Affiliation
    • Address
  4. Sign the form. Be sure to include an e-mail address.
  5. FAX the completed form to Fox Chase Cancer Center, as described on the MTA:
          Fox Chase Cancer Center
          Attn: Arlene Capriotti
          FAX: 215-728-2553
  6. Upon acceptance of the completed MTA you will receive by e-mail a user name and password to access the Bayesian Decomposition download page.

    If you do not receive information for access to our download page within two (2) weeks please contact us.

Related Software:

  • PattRun - A front-end and visualization program that provides a convenient interface for running Bayesian Decomposition and for viewing the results. The program allows the user to read tab-delimited files for data, uncertainty (optional), class membership (optional), and coregulation (optional), and produces output tab-delimited files if desired. The source code of PattRun is released under the GNU general public (GPL). PattRun is included in the PattTools directory when downloaded.
  • ClutrFree - A cluster viewer package available as a java Application. ClutrFree provides essentially the ability to compare microarray clusters issued from different experiments, i.e. the same algorithm used with different parameters or different algorithms. ClutrFree features a procedure to construct a tree from those clusters to infer which ones are more stable among different experiments. Also, ClutrFree displays genes and their memberships along with annotations and ontology. Source code, pre-compiled bytecode, documentation and test datasets are provided. The source code of ClutrFree is released under the GNU general public license (GPL).

Publications:

  • 'Application of Bayesian Decomposition for analysing microarray data', T.D. Moloshok, R. R. Klevecz, J. D. Grant, F. J. Manion, W. F. Speier, IV, and M. F. Ochs, Bioinformatics 18: 566-575, 2002.

  • 'Bayesian Decomposition Analysis of Gene Expression in Yeast Deletion Mutants', Ghislain Bidaut, Thomas D. Moloshok, Jeffrey D. Grant, Frank J. Manion, and Michael F. Ochs, CAMDA-2001.

Documentation:

Contact Information:

Michael Ochs
550 N. Broadway
Suite 1103
Baltimore, MD 21205