Congratulations to Phil, who has started as new faculty at Wesleyan University; to Katie, who is leading a new group at CDC's Center for Forecasting and Outbreak Analytics; to Diana, who has transitioned to a bioinformatics position at U. Chicago's Center for Research Informatics; and to Qifang, who has turned to the "dark side" (her words) of consulting! Unsurprisingly, the lab is hiring again
Welcome to Manon Ragonnet
, a new research scientist who brings her phylogenetics expertise to bear on our efforts to integrate evo-epidemiological models.
Sarah has been promoted to full professor.
Welcome to Alex Byrnes
, our new senior research programmer, to Alonzo Finch
, a undergraduate statistics major at U. Chicago and research assistant, and to Patrick McChesney
, incoming senior research scientist!
Our lab needs to grow! We are searching for several postdocs or senior research scientists and a software engineer/developer. More here
Our new paper
finds the strange age distribution of flu B cases might be explained by the order in which individuals are infected with different strains, with extra protection against B/Yamagata in people first infected with it.
Since spring 2020, our group has provided weekly and then biweekly reports and briefings to the Illinois governor's office, Illinois Department of Public Health, and city and county public health departments. This week marks potentially our last report, although we continue to maintain local transmission estimates and historical analyses at illinoiscovid.org
Katie about temperature checkpoints.
We are excited to be part of a new seven-year NIAID-funded CEIRR center
to do basic research on the dynamics of influenza and SARS-CoV-2. We'll be working closely with collaborators at the University of Pennsylvania, University of Michigan, Fred Hutchinson Cancer Research Center, University of Hong Kong, University of Arizona, and other sites.
Katie and Sarah discuss epidemic metrics with Quanta Magazine
, which had also interviewed Katie in January
. We have also recently talked with the New York Times
, Al Jazeera
, Washington Post
, The Atlantic
, Vox (twice)
, MIT Technology Review
, Scientific American
, ABC News
, Science News
, and BBC Future
. Vaccine misallocation at U. Chicago was covered in the Chicago Tribune
Welcome to Qifang Bi
, who recently completed her PhD in epidemiology at Johns Hopkins SPH. Qifang will be investigating immune responses to SARS-CoV-2 for the PARIS-SPARTA studies and variation in the effectiveness of the seasonal flu vaccine. She will be co-advised by Marc Lipsitch.
Our NIH-funded DRIVE Study
, which investigates the effect of seasonal influenza vaccination and infection on immune responses, starts enrollment in Hong Kong!
Welcome to Rachel Oidtman
, PhD, a new postdoc in the lab! She'll work on modeling longitudinally the development of immune protection to flu.
Diana Vera Cruz
, PhD, joins the lab as a research scientist. She'll be analyzing immune responses to a universal influenza vaccine candidate. Welcome, Diana!
Congratulations to Dr. Marcos Vieira on his impressive PhD defense!
Most of the lab is now working full-time, and then some, on the COVID-19 response. We are so happy to be joined by alumni Frank Wen, Sylvia Ranjeva, and Ed Baskerville!
Welcome to Lauren McGough! With her NIH Kirschstein (F32) fellowship, Lauren will investigate the foundations of adaptive immune evolution.
Welcome to Spencer Carran! He'll be studying influenza vaccine immunogenicity and effectiveness.
Welcome to Katie Gostic, who starts her James S. McDonnell Foundation Postdoctoral Fellowship!
Congratulations to Phil on being awarded an F32!
First flu infections determine susceptibility throughout life, and potentially vaccine effectiveness. New preprint
by Phil (and a parallel study
by Katie Gostic, who joins the lab this fall).
to model the longitudinal development of immunity to influenza (with collaborator Aubree Gordon
at U. Michigan) begins!
We say good-bye to Ed, who is heading off to found his own startup to save us from Facebook and all the rest. His statistical and programming advice will live on in our models forever.
in Nature Communications
shows how immune memory shapes protection to influenza in adults and children. Bonuses: Estimation of imprinting effects, epidemic sizes, household transmission, & more!
Sarah eventually checks her text messages and discovers she has been awarded tenure!
Ed returns to the fold to model the development of immunity to flu. True to form, he immediately proposes provocatively simple models. It's good to have him back!
Congratulations to Frank on his successful PhD defense! We are happy to have him around another few months before he returns to medical school.
Marcos has been awarded a William Rainey Harper Fellowship, one of the University of Chicago's highest honors. Congratulations, Marcos!
Congratulations to Sylvia for successfully defending her PhD thesis!
Phil Arevalo joins the lab as a postdoctoral researcher. Welcome, Phil!
Rohan Dandavati and Graham Northrup join the Cobey lab. Welcome!
Kangchon Kim joins the lab as a postdoc! Welcome, Kangchon!
Scott Hensley and Sarah propose that many patterns in influenza immunology make sense in light of original sin
was awarded an NIH F30 grant. Congratulations, Sylvia!
Frank and Marcos both successfully defended their dissertation proposals this week and are now PhD candidates. Congratulations!
Sarah gives a seminar in the NYU Department of Biology.
Sarah and Ed's new paper
shows that causal inference using state-space reconstruction is unreliable in natural systems.
Daniel Zinder joins the lab as a postdoc! Welcome, Daniel!
Colin Kyle joins the lab as a research programmer. Welcome, Colin!
Sarah was interviewed on NPR
about influenza's phylogeography and its coevolution with the immune system.
Rahul Subramanian begins his PhD in the lab!
Sarah teaches a 2.5-day course on "Pathogen evolution, selection, and immunity" with Trevor Bedford
at the Statistics and Modeling in Infectious Diseases (SISMID) summer school in Seattle.
Lev Tsypin, a third year undergraduate, begins his summer rotation in the lab! He'll be working with Igor on fitting nonlinear dynamics.
joins the lab to investigate methods to fit stochastic, nonlinear dynamical models.
Sarah presents at the RAPIDD workshop "Modeling and predicting influenza phenotypes" at Cambridge University.
Congratulations to Sylvia for successfully defending her thesis proposal!
Congratulations to Marcos, whose paper
has just been published in Ecology Letters
Our new paper
argues that pathogens evolve in a more complex immune environment than most models assume, and the differences matter.
Sarah gives a talk at the J. Craig Venter Institute.
Sarah and Jack Gilbert receive a $75,000 seed grant from the DoE to develop methods to infer pathogen interactions.
Sarah gives a talk at Swarthmore.
Sylvia Ranjeva begins her rotation in the lab! She'll be working on a HPV project she started with Greg Dwyer
Frank Wen joins the lab to work on the phylogeography of influenza!