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» On the Complexity of uSPR Distance
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BMCBI
2005
100views more  BMCBI 2005»
13 years 8 months ago
Scoredist: A simple and robust protein sequence distance estimator
Background: Distance-based methods are popular for reconstructing evolutionary trees thanks to their speed and generality. A number of methods exist for estimating distances from ...
Erik L. L. Sonnhammer, Volker Hollich
RECOMB
2005
Springer
14 years 8 months ago
Predicting Protein-Peptide Binding Affinity by Learning Peptide-Peptide Distance Functions
Many important cellular response mechanisms are activated when a peptide binds to an appropriate receptor. In the immune system, the recognition of pathogen peptides begins when th...
Chen Yanover, Tomer Hertz
BMCBI
2006
111views more  BMCBI 2006»
13 years 8 months ago
PepDist: A New Framework for Protein-Peptide Binding Prediction based on Learning Peptide Distance Functions
Background: Many different aspects of cellular signalling, trafficking and targeting mechanisms are mediated by interactions between proteins and peptides. Representative examples...
Tomer Hertz, Chen Yanover
COMPGEOM
2009
ACM
14 years 3 months ago
Coresets for polytope distance
Following recent work of Clarkson, we translate the coreset framework to the problems of finding the point closest to the origin inside a polytope, finding the shortest distance...
Bernd Gärtner, Martin Jaggi
CIBCB
2007
IEEE
14 years 2 months ago
An Experimental Evaluation of Inversion-and Transposition-Based Genomic Distances through Simulations
— Rearrangements of genes and other syntenic blocks have become a topic of intensive study by phylogenists, comparative genomicists, and computational biologists: they are a feat...
Moulik Kothari, Bernard M. E. Moret