9 Result(s)
within
Eric A Stone
Life Sciences
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Article
A deep-learning framework to predict cancer treatment response from histopathology images through imputed transcriptomics
Advances in artificial intelligence have paved the way for leveraging hematoxylin and eosin-stained tumor slides for precision oncology. We present ENLIGHT–DeepPT, an indirect two-step approach consisting of (...
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Article
Open AccessPhysical 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 ...
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Article
Open AccessThe stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation
Silencing of transposable elements (TEs) is essential for maintaining genome stability. Plants use small RNAs (sRNAs) to direct DNA methylation to TEs (RNA-directed DNA methylation; RdDM). Similar mechanisms o...
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Predictor performance with stratified data and imbalanced classes
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Article
Open AccessIdentification of RNA binding motif proteins essential for cardiovascular development
We recently identified Rbm24 as a novel gene expressed during mouse cardiac development. Due to its tightly restricted and persistent expression from formation of the cardiac crescent onwards and later in forming...
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Article
Open AccessThe non-random clustering of non-synonymous substitutions and its relationship to evolutionary rate
Protein sequences are subject to a mosaic of constraint. Changes to functional domains and buried residues, for example, are more apt to disrupt protein structure and function than are changes to residues part...
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Article
Open AccessA 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 ...
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Open AccessConstructing 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...
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Article
Open AccessMixture 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...
