Over the last decade, molecular systematics has undergone a change of paradigm as high-
throughput sequencing now makes it possible to reconstruct evolutionary relationships …

This review is motivated by the true explosion in the number of recent studies both
develo** and ameliorating probabilistic models of codon evolution. Traditionally …

The relationships at the root of the animal tree have proven difficult to resolve, with the
current debate focusing on whether sponges (phylum Porifera) or comb jellies (phylum …

In the past, 2 kinds of Markov models have been considered to describe protein sequence
evolution. Codon-level models have been mechanistic with a small number of parameters …

We investigate the use of Markov models of evolution for reduced amino acid alphabets or
bins of amino acids. The use of reduced amino acid alphabets can ameliorate effects of …

The field of therapeutics and diagnostics is advanced by nanotechnology-based
approaches including the spatial-temporal release of drugs, targeted delivery, enhanced …

Six-state amino acid recoding strategies are commonly applied to combat the effects of
compositional heterogeneity and substitution saturation in phylogenetic analyses. While …

Long-branch attraction (LBA) is a well-known artifact in phylogenetic reconstruction. Sparse
taxon sampling and extreme heterogeneity of evolutionary rates among lineages generate …

Amyloids are proteins associated with several clinical disorders, including Alzheimer's, and
Creutzfeldt-Jakob's. Despite their diversity, all amyloid proteins can undergo aggregation …

Ligand peptides that have high affinity for ion channels are critical for regulating ion flux
across the plasma membrane. These peptides are now being considered as potential drug …