- Clustering by soft-constraint affinity propagation: applications to gene-expression dataMichele Leone
Institute for Scientific Interchange, Viale Settimio Severo 65, Villa Gualino, I 10133 Torino, Italy
Bioinformatics 23:2708-15. 2007..The hard constraint of having exactly one exemplar per cluster restricts AP to classes of regularly shaped clusters, and leads to suboptimal performance, e.g. in analyzing gene expression data...
- Predicting protein functions with message passing algorithmsMichele Leone
Institute for Scientific Interchange ISI Viale Settimio Severo 65, Turin, I 10133, Italy
Bioinformatics 21:239-47. 2005..In the present work, we will refer to an 'observed' protein as the one present in the protein-protein interaction networks published in the literature...
- Statistical mechanics of combinatorial auctionsTobias Galla
The Abdus Salam International Centre for Theoretical Physics, Strada Costiera 11, 34014 Trieste, Italy
Phys Rev Lett 97:128701. 2006..The algorithm can be generalized to the hard phase and to more sophisticated auction protocols...
- A critical assessment of Mus musculus gene function prediction using integrated genomic evidenceLourdes Pena-Castillo
Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, ON M5S3E1, Canada
Genome Biol 9:S2. 2008..Several algorithms using diverse genomic data have been applied to this task in model organisms; however, the performance of such approaches in mammals has not yet been evaluated...