Publications by authors named "Alison F Feder"

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Intracellular interactions shape antiviral resistance outcomes in poliovirus via eco-evolutionary feedback.
Alexander J Robertson, Benjamin Kerr, Alison F Feder

Nat Ecol Evol· December 2025

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Intracellular interactions shape antiviral resistance outcomes in poliovirus via eco-evolutionary feedback.
Alexander J Robertson, Benjamin Kerr, Alison F Feder

bioRxiv· September 2025

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Epithelial competition determines gene therapy potential to suppress Fanconi Anemia oral cancer risk.
Hunter L Colegrove, Raymond J Monnat, Alison F Feder

PLoS Comput Biol· September 2025

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Pseudomonas infections persisting after CFTR modulators are widespread throughout the lungs and drive lung inflammation.
Samantha L Durfey, Siddhartha G Kapnadak, Tahuanty Pena, Matthew M Willmering, J David Godwin, Alison F Feder

Cell Host Microbe· August 2025

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Distinct modes of evolution drive HIV escape from two broadly neutralizing antibodies.
Elena V Romero, Abigail E Clyde, Elena E Giorgi, Dylan H Westfall, Walker Azam, Alison F Feder

bioRxiv· August 2025

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Epithelial competition determines gene therapy potential to suppress Fanconi Anemia oral cancer risk.
Hunter L Colegrove, Raymond J Monnat, Alison F Feder

bioRxiv· July 2025

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Detecting branching rate heterogeneity with tree balance statistics in lineage tracing trees.
Yingnan Gao, Alison F Feder

bioRxiv· May 2025

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A signature-agnostic test for differences between tumor mutation spectra reveals carcinogen and ancestry effects.
Samuel F M Hart, Nicolas Alcala, Alison F Feder, Kelley Harris

bioRxiv· May 2025

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Elevated HIV Viral Load is Associated with Higher Recombination Rate In Vivo.
Elena V Romero, Alison F Feder

Mol Biol Evol· January 2024

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Brain tropism acquisition: The spatial dynamics and evolution of a measles virus collective infectious unit that drove lethal subacute sclerosing panencephalitis.
Iris Yousaf, William W Hannon, Ryan C Donohue, Christian K Pfaller, Kalpana Yadav, Alison F Feder

PLoS Pathog· December 2023

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Elevated HIV viral load is associated with higher recombination rate .
Elena V Romero, Alison F Feder

bioRxiv· October 2023

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State-dependent evolutionary models reveal modes of solid tumour growth.
Maya A Lewinsohn, Trevor Bedford, Nicola F Müller, Alison F Feder

Nat Ecol Evol· April 2023

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Understanding patterns of HIV multi-drug resistance through models of temporal and spatial drug heterogeneity.
Alison F Feder, Kristin N Harper, Chanson J Brumme, Pleuni S Pennings

Elife· September 2021

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The clarifying role of time series data in the population genetics of HIV.
Alison F Feder, Pleuni S Pennings, Dmitri A Petrov

PLoS Genet· January 2021

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Evolutionary Dynamics in Structured Populations Under Strong Population Genetic Forces.
Alison F Feder, Pleuni S Pennings, Joachim Hermisson, Dmitri A Petrov

G3 (Bethesda)· October 2019

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The Relationship Between Haplotype-Based and Haplotype Length.
Rohan S Mehta, Alison F Feder, Simina M Boca, Noah A Rosenberg

Genetics· September 2019

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Correction: Within-patient mutation frequencies reveal fitness costs of CpG dinucleotides and drastic amino acid changes in HIV.
Kristof Theys, Alison F Feder, Maoz Gelbart, Marion Hartl, Adi Stern

PLoS Genet· December 2018

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Within-patient mutation frequencies reveal fitness costs of CpG dinucleotides and drastic amino acid changes in HIV.
Kristof Theys, Alison F Feder, Maoz Gelbart, Marion Hartl, Adi Stern

PLoS Genet· June 2018

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A spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host.
Alison F Feder, Christopher Kline, Patricia Polacino, Mackenzie Cottrell, Angela D M Kashuba

PLoS Pathog· May 2017

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Correction: More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1.
Alison F Feder, Soo-Yon Rhee, Susan P Holmes, Robert W Shafer, Dmitri A Petrov

Elife· January 2017

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More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1.
Alison F Feder, Soo-Yon Rhee, Susan P Holmes, Robert W Shafer, Dmitri A Petrov

Elife· February 2016

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The population genetics of drug resistance evolution in natural populations of viral, bacterial and eukaryotic pathogens.
Benjamin A Wilson, Nandita R Garud, Alison F Feder, Zoe J Assaf, Pleuni S Pennings

Mol Ecol· January 2016

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Identifying signatures of selection in genetic time series.
Alison F Feder, Sergey Kryazhimskiy, Joshua B Plotkin

Genetics· February 2014

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LDx: estimation of linkage disequilibrium from high-throughput pooled resequencing data.
Alison F Feder, Dmitri A Petrov, Alan O Bergland

PLoS One· May 2013

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Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome.
Kirk E Lohmueller, Anders Albrechtsen, Yingrui Li, Su Yeon Kim, Thorfinn Korneliussen, Alison F Feder

PLoS Genet· October 2011

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