Open Access Research article

Using affinity propagation for identifying subspecies among clonal organisms: lessons from M. tuberculosis

Claudio Borile12, Mathieu Labarre1, Silvio Franz1, Christophe Sola34 and Guislaine Refrégier3*

Author Affiliations

1 LPTMS, CNRS and Univ. Paris-Sud, UMR8626, Bat. 100, 91405 Orsay, France

2 Dipartimento di Fisica "G. Galilei", Università di Padova, via Marzolo 8, I-35131 Padova, Italy

3 IGM, CNRS and Univ. Paris-Sud, UMR8621, Bat. 400, F-91405 Orsay cedex, France

4 Unité de Génétique Mycobactérienne, Institut Pasteur, Paris, France

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BMC Bioinformatics 2011, 12:224  doi:10.1186/1471-2105-12-224

Published: 2 June 2011

Additional files

Additional file 1:

Plot of similarity to their reference for patterns assigned as the expert classification (Green), patterns not assigned due to ambiguity (Gray) and patterns assigned differently than the expert classification (Red).

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Additional file 2:

SpolDB4 new assignations, using the previously identified references or the newly identified ones.

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Additional file 3:

Mean similarity of patterns with their representative as a function of the cluster size, and for different clustering methods (AP: Affinity Propagation; Bio: Bionumerics; KM: K-Means).

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Open Data