Kathleen Foley
A5050037082- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Genomics and Chromatin Dynamics
- Evolution and Paleontology Studies
- Ethics and Legal Issues in Pediatric Healthcare
- Epigenetics and DNA Methylation
- Prenatal Screening and Diagnostics
- Developmental Biology and Gene Regulation
- Wildlife Ecology and Conservation
- Bat Biology and Ecology Studies
- Machine Learning in Bioinformatics
- Health, Environment, Cognitive Aging
- Nutrition, Genetics, and Disease
- Ethics in Clinical Research
- Marine animal studies overview
Lehigh University
2022-2024
University of Iowa
2022-2023
Species persistence can be influenced by the amount, type, and distribution of diversity across genome, suggesting a potential relationship between historical demography resilience. In this study, we surveyed genetic variation single genomes 240 mammals that compose Zoonomia alignment to evaluate how effective population size (
Protein-coding differences between species often fail to explain phenotypic diversity, suggesting the involvement of genomic elements that regulate gene expression such as enhancers. Identifying associations enhancers and phenotypes is challenging because enhancer activity can be tissue-dependent functionally conserved despite low sequence conservation. We developed Tissue-Aware Conservation Inference Toolkit (TACIT) associate candidate with species' using predictions from machine learning...
Abstract Protein-coding differences between mammals often fail to explain phenotypic diversity, suggesting involvement of enhancers, rapidly evolving regions that regulate gene expression. Identifying associations enhancers and phenotypes is challenging because enhancer activity context-dependent may be conserved without much sequence conservation. We developed TACIT (Tissue-Aware Conservation Inference Toolkit) associate open chromatin (OCRs) with using predictions in hundreds mammalian...
Abstract Comparative genomics approaches seek to associate evolutionary genetic changes with the evolution of phenotypes across a phylogeny. Many these methods, including our rates based method, RERconverge, lack capability analyzing non-ordinal, multicategorical traits. To address this limitation, we introduce an expansion RERconverge that associates shifts in convergent multi-categorical The categorical includes methods for performing ancestral state reconstruction, statistical tests...
Comparative genomics approaches seek to associate molecular evolution with the of phenotypes across a phylogeny. Many these methods lack ability analyze non-ordinal categorical traits more than two categories. To address this limitation, we introduce an expansion RERconverge that associates shifts in evolutionary rates convergent traits. The includes for performing ancestral state reconstruction, statistical tests associating relative variables, and new method phylogeny-aware permutations,...