Identifying dramatic selection shifts in phylogenetic trees (2007)
Abstract Background The rate of evolution varies spatially along genomes and temporally in time. The presence of evolutionary rate variation is an informative signal that often marks functional...
Subpopulations of Equine Infectious Anemia Virus Rev Coexist In Vivo and Differ in Phenotype (2003)
Baccam, Prasith, Thompson, Robert J., Li, Yuxing, Sparks, Wendy O., Belshan, Michael, Dorman, Karin S., ...
Lentiviruses exist in vivo as a population of related, nonidentical genotypes, commonly referred to as quasispecies. The quasispecies structure is characteristic of complex adaptive systems and...
Oh Brother, Where Art Thou? - A Bayes Factor Test for Recombination with Uncertain Heritage (2001)
Marc A. Suchard, Robert E. Weiss, Karin S. Dorman, Janet S. Sinsheimer
Current methods to identify recombination between genetic variants of human immunodeciency virus-1 (HIV-1) fall into a sequential testing trap, in which signicance is assessed conditional on the...
Are You My Mother? Inferring Parentals for Recombination and Spatial Phylogenetic Variation (2001)
Marc A. Suchard, Robert E. Weiss, Karin S. Dorman, Janet S. Sinsheimer
We develop a Bayesian multiple change-point model to infer spatial phylogenetic variation (SPV) along aligned molecular sequence data. SPV occurs in sequences from organisms that have undergone...
Evolutionary Similarity Among Genes in Primate Sex Determination (2001)
Marc A. Suchard, Robert E. Weiss, Karin S. Dorman, Megha Patel, Janet S. Sinsheimer, ...
Evolutionary Similarity occurs when the branching patterns and relative branch lengths in evolutionary histories from different genes are the same or nearly the same across a set of organisms....
Marc A. Suchard, Robert E. Weiss, Karin S. Dorman, Megha Patel, Janet S. Sinsheimer, ...
Evolutionary Similarity occurs when the branching patterns and relative branch lengths in evolutionary histories from different genes are the same or nearly the same across a set of organisms....
Subpopulations of Equine Infectious Anemia Virus Rev Coexist In Vivo and Differ in Phenotype
Baccam, Prasith, Thompson, Robert J., Li, Yuxing, Sparks, Wendy O., Belshan, Michael, Dorman, Karin S., ...
Lentiviruses exist in vivo as a population of related, nonidentical genotypes, commonly referred to as quasispecies. The quasispecies structure is characteristic of complex adaptive systems and...
Primate DAX1, SRY, and SOX9: Evolutionary Stratification of Sex-Determination Pathway
Patel, Megha, Dorman, Karin S., Zhang, Yao-Hua, Huang, Bing-Ling, Arnold, Arthur P., Sinsheimer, Janet S., ...
The molecular evolution of DAX1, SRY, and SOX9, genes involved in mammalian sex determination, was examined in six primate species. DAX1 and SRY have been added to the X and Y chromosomes,...
Subpopulations of Equine Infectious Anemia Virus Rev Coexist In Vivo and Differ in Phenotype
Baccam, Prasith, Thompson, Robert J., Li, Yuxing, Sparks, Wendy O., Belshan, Michael, Dorman, Karin S., ...
Lentiviruses exist in vivo as a population of related, nonidentical genotypes, commonly referred to as quasispecies. The quasispecies structure is characteristic of complex adaptive systems and...
Primate DAX1, SRY, and SOX9: Evolutionary Stratification of Sex-Determination Pathway
Patel, Megha, Dorman, Karin S., Zhang, Yao-Hua, Huang, Bing-Ling, Arnold, Arthur P., Sinsheimer, Janet S., ...
The molecular evolution of DAX1, SRY, and SOX9, genes involved in mammalian sex determination, was examined in six primate species. DAX1 and SRY have been added to the X and Y chromosomes,...
Minin, Vladimir N., Dorman, Karin S., Fang, Fang, Suchard, Marc A.
We present a Bayesian framework for inferring spatial preferences of recombination from multiple putative recombinant nucleotide sequences. Phylogenetic recombination detection has been an active...