William S. Sanders

TL;DR: It is shown that an abrupt five- to sixfold ploidy increase approximately 60 million years (Myr) ago, and allopolyploidy reuniting divergent Gossypium genomes approximately 1–2 Myr ago, conferred about 30–36-fold duplication of ancestral angiosperm genes in elite cottons, genetic complexity equalled only by Brassica among sequenced angiosperms.

TL;DR: This work has investigated the influence of the composition of training datasets on the ability to classify peptides as cell penetrating using support vector machines (SVMs) and found that SVM based classifiers have greater classification accuracy than previously reported methods for the prediction of CPPs.

TL;DR: A methodology for constructing artificial neural networks that can be used to predict which peptides are potentially observable for a given set of experimental, instrumental, and analytical conditions for 2D LC MS/MS datasets and demonstrates the utility of predicted peptide observability for systems analysis.

TL;DR: The Proteogenomic Mapping Tool includes a Java implementation of the Aho-Corasick string searching algorithm which takes as input standardized file types and rapidly searches experimentally observed peptides against a given genome translated in all 6 reading frames for exact matches.

TL;DR: It is demonstrated that, despite negligible divergence in genome size, the two domesticated diploid cotton species contain different, but compensatory, repeat content and have thus experienced cryptic alterations in repeat abundance despite equivalence in genome sizes.