Alison F. Feder

As of August 1, 2018, I am a Miller fellow at Berkeley. My new (although nearly identical) website can be found here.
Contact
- e-mail: afeder@stanford.edu
371 Serra St.
Stanford University
Stanford, CA 94305-5020
You can also find me on Twitter.
I'm planning to attend several conferences this summer (2018). Let me know if you want to meet up at the IDM symposium, HIV Dynamics & Evolution, PEQG, or SMBE!
Research
I'm generally interested in evolution, and how we can use mathematics and computation to better understand evolutionary processes. I am particularly interested in how these processes play out in pathogen populations rapidly evolving within their hosts.
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.

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

with K. Theys, Maoz Gelbart, Marion Hartl, Adi Stern, Pleuni Pennings

with Dmitri Petrov, Pleuni Pennings, Zandrea Ambrose

[paper, video abstract]
with Soo-Yon Rhee, Susan Holmes, Bob Shafer, Dmitri Petrov and Pleuni Pennings

with Ben Wilson, Nandita Garud, Zoe Assaf, and Pleuni Pennings

with Gil McVean

Identifying Signatures of Selection in Genetic Time Series (2014) [paper]
with Sergey Kryazhimskiy and Joshua Plotkin

Estimating linkage disequilibrium from pooled paired end NGS reads using an approximate maximum likelihood approach. [paper, download LDx]
with Dmitri Petrov and Alan Bergland - Summer 2011

Investigating the correlation between recombination rate and mean allelic frequency in the context of different regimes of natural selection. [paper]
with Kirk Lohmueller and Rasmus Nielsen - Summer 2010

Estimating the bias incurred when estimating phylogenetic timescales with incorrect nucleotide substitution models
with Warren Ewens - Spring 2009
Other media
- Here's a seminar I gave at the Center for the Inference and
Dynamics of Infectious Disease (CIDID) at the Fred Hutch in September,
2017: [Flyer,
Video]
- Video abstract for 'A spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host':
- A Muller diagram I drew was featured
as part of the cover of Molecular Ecology's special issue on 'Detecting Selection in Natural Populations.'
- Video abstract for 'More efficient drugs lead to harder sweeps in the evolution of drug resistance in HIV-1':
Contact
- e-mail: afeder@stanford.edu
371 Serra St.
Stanford University
Stanford, CA 94305-5020