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» Alignment-Free Phylogenetic Reconstruction
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RECOMB
2010
Springer
13 years 11 months ago
Alignment-Free Phylogenetic Reconstruction
We introduce the first polynomial-time phylogenetic reconstruction algorithm under a model of sequence evolution allowing insertions and deletions—or indels. Given appropriate ...
Constantinos Daskalakis, Sébastien Roch
RECOMB
2008
Springer
14 years 5 months ago
A Fast, Alignment-Free, Conservation-Based Method for Transcription Factor Binding Site Discovery
As an increasing number of eukaryotic genomes are being sequenced, comparative studies aimed at detecting regulatory elements in intergenic sequences are becoming more prevalent. M...
Raluca Gordân, Leelavati Narlikar, Alexander...
ALGORITHMICA
1999
87views more  ALGORITHMICA 1999»
13 years 4 months ago
The Performance of Neighbor-Joining Methods of Phylogenetic Reconstruction
We analyze the performance of the popular class of neighbor-joining methods of phylogeny reconstruction. In particular, we find conditions under which these methods will determine ...
Kevin Atteson
RSA
2010
98views more  RSA 2010»
13 years 3 months ago
Network delay inference from additive metrics
We demonstrate the use of computational phylogenetic techniques to solve a central problem in inferential network monitoring. More precisely, we design a novel algorithm for multi...
Shankar Bhamidi, Ram Rajagopal, Sébastien R...
PROCEDIA
2010
154views more  PROCEDIA 2010»
12 years 11 months ago
Parallel computation of phylogenetic consensus trees
The field of bioinformatics is witnessing a rapid and overwhelming accumulation of molecular sequence data, predominantly driven by novel wet-lab sequencing techniques. This trend...
Andre J. Aberer, Nicholas D. Pattengale, Alexandro...