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BMCBI
2008
124views more  BMCBI 2008»
14 years 9 months ago
Inferring modules of functionally interacting proteins using the Bond Energy Algorithm
Background: Non-homology based methods such as phylogenetic profiles are effective for predicting functional relationships between proteins with no considerable sequence or struct...
Ryosuke Watanabe, Enrique Morett, Edgar E. Vallejo
CIBCB
2007
IEEE
15 years 3 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
ICNC
2005
Springer
15 years 2 months ago
Local Search for the Maximum Parsimony Problem
Abstract. Four local search algorithms are investigated for the phylogenetic tree reconstruction problem under the Maximum Parsimony criterion. A new subtree swapping neighborhood ...
Adrien Goëffon, Jean-Michel Richer, Jin-Kao H...
RECOMB
2001
Springer
15 years 9 months ago
Algorithms for phylogenetic footprinting
Phylogenetic footprinting is a comparative genomics approach for predicting transcription factor binding sites, where a set of orthologous regulatory regions are compared and short...
Mathieu Blanchette
EVOW
2010
Springer
15 years 4 months ago
Top-Down Induction of Phylogenetic Trees
We propose a novel distance based method for phylogenetic tree reconstruction. Our method is based on a conceptual clustering method that extends the well-known decision tree learn...
Celine Vens, Eduardo Costa, Hendrik Blockeel