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  1. Article

    Open Access

    Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data

    Most animals and plants have more than one set of chromosomes and package these haplotypes into a single nucleus within each cell. In contrast, many fungal species carry multiple haploid nuclei per cell. Rust ...

    Hongyu Duan, Ashley W. Jones, Tim Hewitt, Amy Mackenzie, Yiheng Hu in Genome Biology (2022)

  2. No Access

    Article

    Predictor performance with stratified data and imbalanced classes

    Eric A Stone in Nature Methods (2014)

  3. Article

    Open Access

    A transcriptional network associated with natural variation in Drosophilaaggressive behavior

    Aggressive behavior is an important component of fitness in most animals. Aggressive behavior is genetically complex, with natural variation attributable to multiple segregating loci with allelic effects that ...

    Alexis C Edwards, Julien F Ayroles, Eric A Stone, Mary Anna Carbone in Genome Biology (2009)

  4. Article

    Open Access

    Constructing a meaningful evolutionary average at the phylogenetic center of mass

    As a consequence of the evolutionary process, data collected from related species tend to be similar. This similarity by descent can obscure subtler signals in the data such as the evidence of constraint on va...

    Eric A Stone, Arend Sidow in BMC Bioinformatics (2007)

  5. Article

    Open Access

    Mixture modeling of transcript abundance classes in natural populations

    Populations diverge in genotype and phenotype under the influence of such evolutionary processes as genetic drift, mutation accumulation, and natural selection. Because genotype maps onto phenotype by way of t...

    Wen-** Hsieh, Gisele Passador-Gurgel, Eric A Stone, Greg Gibson in Genome Biology (2007)