As more research centers embark on sequencing new genomes, the problem of DNA fragment assembly for shotgun sequencing is growing in importance and complexity. Accurate and fast a...
Background: Phylogenetic profiles record the occurrence of homologs of genes across fully sequenced organisms. Proteins with similar profiles are typically components of protein c...
Systematic analyses are included as integral parts of bioinformatic analysis. The use of phenetic and phylogenetic trees in many of the newer areas of biology create a need for bi...
Two models for gene assembly in ciliates have been proposed and investigated in the last few years. The DNA manipulations postulated in the two models are very different: one mode...
We study the convergence rates of neighbor-joining and several new phylogenetic reconstruction methods on families of trees of bounded diameter. Our study presents theoretically ob...
Luay Nakhleh, Usman Roshan, Katherine St. John, Je...