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» Visualizations for taxonomic and phylogenetic trees
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BMCBI
2006
137views more  BMCBI 2006»
13 years 7 months ago
Genome BLAST distance phylogenies inferred from whole plastid and whole mitochondrion genome sequences
Background: Phylogenetic methods which do not rely on multiple sequence alignments are important tools in inferring trees directly from completely sequenced genomes. Here, we exte...
Alexander F. Auch, Stefan R. Henz, Barbara R. Holl...
JCB
2006
124views more  JCB 2006»
13 years 7 months ago
The Average Common Substring Approach to Phylogenomic Reconstruction
We describe a novel method for efficient reconstruction of phylogenetic trees, based on sequences of whole genomes or proteomes, whose lengths may greatly vary. The core of our me...
Igor Ulitsky, David Burstein, Tamir Tuller, Benny ...
RECOMB
2005
Springer
14 years 7 months ago
Information Theoretic Approaches to Whole Genome Phylogenies
We describe a novel method for efficient reconstruction of phylogenetic trees, based on sequences of whole genomes or proteomes, whose lengths may greatly vary. The core of our me...
David Burstein, Igor Ulitsky, Tamir Tuller, Benny ...
BMCBI
2007
79views more  BMCBI 2007»
13 years 7 months ago
Orthology prediction at scalable resolution by phylogenetic tree analysis
Background: Orthology is one of the cornerstones of gene function prediction. Dividing the phylogenetic relations between genes into either orthologs or paralogs is however an ove...
René T. J. M. van der Heijden, Berend Snel,...
BMCBI
2008
125views more  BMCBI 2008»
13 years 7 months ago
XplorSeq: A software environment for integrated management and phylogenetic analysis of metagenomic sequence data
Background: Advances in automated DNA sequencing technology have accelerated the generation of metagenomic DNA sequences, especially environmental ribosomal RNA gene (rDNA) sequen...
Daniel N. Frank