Alison F. Feder


I am an evolutionary biologist studying how adaptation proceeds in space and time. I'm currently a Miller Fellow with Oskar Hallatschek and Monty Slatkin in the Department of Integrative Biology at UC Berkeley. I received my PhD in biology at Stanford University advised by Dmitri Petrov.

Contact


You can also find me on Twitter.

Research


Here are some of the projects I've worked on over the past several years, and you can find a current list of publications on Google scholar.

The clarifying role of time series data in the population genetics of HIV (2018) [pre-print]

Alison Feder, Pleuni Pennings, Dmitri Petrov



Rapid adaptation reveals structure in populations that are effectively panmictic under neutrality.

This is ongoing work with Pleuni Pennings, Dmitri Petrov and Joachim Hermisson



Within-patient HIV mutation frequencies reveal fitness costs of CpG dinucleotides, drastic amino acid changes and G->A mutations (2018) [paper]

Kristof Theys*, Alison Feder*, Maoz Gelbart*, Marion Hartl, Adi Stern, Pleuni Pennings


High resolution spatio-temporal assessment of SHIV evolution reveals a highly dynamic process within the host (2017) [paper,video abstract]

Alison Feder, Christopher Kline, Patricia Polacino, Mackenzie Cottrell, Angela Kashuba, Brandon Keele, Shiu-Lok Hu, Dmitri Petrov, Pleuni Pennings, Zandrea Ambrose


More effective drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1 (2016)
[paper, video abstract]

Alison Feder, Soo-Yon Rhee, Susan Holmes, Bob Shafer, Dmitri Petrov and Pleuni Pennings


The population genetics of drug resistance evolution in natural populations of viral, bacterial and eukaryotic pathogens. (2016) [paper]

Ben Wilson*, Nandita Garud*, Alison Feder*, Zoe Assaf*, and Pleuni Pennings


Comparative analysis of derived mutations across human populations (2013) [MSc thesis]

Alison Feder (advised by Gil McVean)





Identifying Signatures of Selection in Genetic Time Series (2014) [paper]

Alison Feder*, Sergey Kryazhimskiy*, Joshua Plotkin



LDx: estimation of linkage disequilibrium from high-throughput pooled resequencing data. [paper, download LDx]

Alison Feder, Dmitri Petrov, Alan Bergland



Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome. [paper]

Kirk Lohmueller, Anders Albrechtsen, Yingrui Li, Su Yeon Kim, Thorfinn Korneliussen, Nicolas Vinckenbosch, Geng Tian, Emilia Huerta-Sanchez, Alison Feder, Niels Grarup, Torben Jorgensen, Tao Jiang, Daniel R. Witte, ... , Rasmus Nielsen

Estimating the bias incurred when estimating phylogenetic timescales with incorrect nucleotide substitution models

with Warren Ewens - Spring 2009

Other media




Contact


Department of Biology
371 Serra St.
Stanford University
Stanford, CA 94305-5020

Brief CV



I have been fortunate to receive support from: