A new challenge for compression algorithms: genetic sequences
Information Processing and Management: an International Journal - Special issue: data compression
A few logs suffice to build (almost) all trees (l): part I
Random Structures & Algorithms
A compression algorithm for DNA sequences and its applications in genome comparison
RECOMB '00 Proceedings of the fourth annual international conference on Computational molecular biology
Discovering Sequence Similarity by the Algorithmic Significance Method
Proceedings of the 1st International Conference on Intelligent Systems for Molecular Biology
Prokaryote Phylogeny without Sequence Alignment: From Avoidance Signature to Composition Distance
CSB '03 Proceedings of the IEEE Computer Society Conference on Bioinformatics
Whole Genome Phylogeny Based on Clustered Signature String Composition
CSBW '05 Proceedings of the 2005 IEEE Computational Systems Bioinformatics Conference - Workshops
Composition Vector Method Based on Maximum Entropy Principle for Sequence Comparison
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
An ant colony optimisation algorithm for constructing phylogenetic tree
International Journal of Computer Applications in Technology
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A new method called Complete Composition Vector (CCV), which is a collection of Composition Vectors (CV), is described to infer evolutionary relationships between species using their complete genomic sequences. Such a method bypasses the complexity of performing multiple sequence alignments and avoids the ambiguity of choosing individual genes for species tree construction. It is expected to effectively retain the rich evolutionary information contained in the whole genomic sequence. The method was applied to infer the evolutionary footprints for several datasets that have been previously studied. The final phylogenies were built by an improved clustered Neighbour-Joining method. The generated phylogenetic trees are highly consistent with taxonomy hierarchy and previous studies, with some biologically interesting disagreements.