Caroline Colijn

Canada 150 Research Chair in Mathematics for Infection, Evolution and Public Health

#48 | Infectious Disease |

Last synced from Twitter 5h ago

IDDjobs — Infectious disease or population dynamic modellers wanted for covid19 modelling and forecasting — Simon Fraser University

Find infectious disease dynamics modelling jobs, studentships, and fellowships.

12

Caroline Colijn
Modellers, we want you! Come and join our group!
3d

'It's still right here with us': Canadian experts nervously watching COVID-19 surge in U.S.

High rates of disease in the U.S. could potentially influence the epidemic in Canada, says University of Toronto epidemiologist David Fisman.

Long time frames to detect the impact of changing COVID-19 control measures

Background: Many countries have implemented population-wide interventions such as physical distancing measures, in efforts to control COVID-19. The extent and success of such measures has varied. Many jurisdictions with declines in reported COVID-19...

How much leeway is there to relax COVID-19 control measures?

Following successful widespread non-pharmaceutical interventions aiming to control COVID-19, many jurisdictions are moving towards reopening economies and borders. Given that little immunity has developed in most populations, re-establishing higher...

14

Caroline Colijn
Widely varying leeway to relax COVID-19 measures: medrxiv.org/content/10.110… pic.twitter.com/j4bIWem0R7
25d

Weekly surveillance report on COVID-19

This report provides an overview of the COVID-19 epidemiology in the EU/EEA and the UK using the available data compiled from multiple sources.

1

Caroline Colijn
Does anyone know why Sweden had a spike of 2000+ reported covid19 cases on June 4? ecdc.europa.eu/en/covid-19/su… pic.twitter.com/JIuXAj4WI1
30d

How you can help with COVID-19 modelling

Many physicists want to use their mathematical modelling skills to study the COVID-19 pandemic. Julia Gog, a mathematical epidemiologist, explains some ways to contribute.

1

Caroline Colijn
@ChrisWymant But what would FEYNMAN do? ('cause of course we are just like him).
I think Julia Gog has it
37d

The leeway factor: As coronavirus lockdowns lift, how far can we return to normal without triggering a second wave?

Determining how much freedom to allow is a question bedevilling politicians and public health officials across the country

3

Caroline Colijn
Happy to have done the modelling in this article in collaboration with Ivan Semeniuk at the Globe
47d

Estimating the impact of COVID-19 control measures using a Bayesian model of physical distancing

Extensive physical distancing measures are currently the primary intervention against coronavirus disease 2019 (COVID-19) worldwide. It is therefore urgent to estimate the impact such measures are having. We introduce a Bayesian epidemiological...

8

Caroline Colijn
Finally screened! medrxiv.org/content/10.110…. . We estimate strong impact of distancing measures in BC 1/ pic.twitter.com/eNxujjigi7
78d

Thread by @AbdulElSayed: I've been asked how I'd respond to #COVID right now: a THREAD: 5 goals: 1) See curve: deploy tests efficiently 2) Flatten curve: Reduce tran…

Thread by @AbdulElSayed: I've been asked how I'd respond to #COVID right now: a THREAD: 5 goals: 1) See curve: deploy tests efficiently 2) Fl: Reduce transmission 3) Prepare for curve: Increase healthcare capacity 4) Catch curve: Contact trace below...

carolinecolijn/SimpleSocialDistancing

A simple model for COVID19 with social distancing - carolinecolijn/SimpleSocialDistancing

3

Caroline Colijn
@neil_ferguson If you want to play with models in the meantime: simple models look very much like this complex one. Here is one - you can explore varying strengths of social distancing and see the flattened curves, w uncertainty in R0.
108d

Transmission interval estimates suggest pre-symptomatic spread of COVID-19

Background: As the COVID-19 epidemic is spreading, incoming data allows us to quantify values of key variables that determine the transmission and the effort required to control the epidemic. We determine the incubation period and serial interval...

3

Caroline Colijn
Our serial interval, incubation period paper is screened! medrxiv.org/cgi/content/sh…
Punch line: serial intervals shorter than incubation periods suggest quite a lot of presymptomatic transmission, with R0 around 2.
125d

Deadly infections 'could be HALVED by more specific vaccines'

Researchers from the University of Oslo said making Streptococcus pneumoniae vaccines which are specific to the bacteria found where someone lives could make them work better.

1

Caroline Colijn
Our vaccine optimisation paper made the Daily Mail! Published today in @NatureMicrobiol rdcu.be/b08N1.
Daily Mail: Deadly infections 'could be HALVED by more specific vaccines' mol.im/a/7961729 via @MailOnline
156d

Simon Fraser University, Statistics & Actuarial Science, andDepartment of Mathematics, Simon Fraser University

Full service online faculty recruitment site for mathematical institutions worldwide, offered by the American Mathematical Society (AMS).

3

Caroline Colijn
Applied, computational probability folks - want to work in beautiful, sunny Vancouver? Join our math and stats departments: mathjobs.org/jobs/jobs/15043
(note: sunny today. not sunny always).
225d

Genomic variant identification methods alter Mycobacterium tuberculosis transmission inference

Pathogen genomic data are increasingly used to characterize global and local transmission patterns of important human pathogens and to inform public health interventions. Yet there is no current consensus on how to measure genomic variation. We...

1

Caroline Colijn
Genomic epi folks: aiming for transmission inference? Then worry less about false *positive* SNPs than false *negative* ones. Great work by Katharine Walter and others
316d

Designing ecologically-optimised vaccines using population genomics

Streptococcus pneumoniae (the pneumococcus) is a common nasopharyngeal commensal capable of infecting normally sterile anatomical sites, resulting in invasive pneumococcal disease (IPD). Effective vaccines preventing IPD exist, but each of the...

1

Caroline Colijn
We used genomic data to design vaccine formulations for S. pneumo. A punch line: Customize vaccines for different (bacterial) populations in different places (don't just use Western vaccines everywhere). w. N. Croucher, J. Corander
387d

Predicting the short-term success of human influenza A variants with machine learning

Seasonal influenza viruses are constantly changing, and produce a different set of circulating strains each season. These small genetic changes can accumulate over time and result in antigenically different viruses. Accordingly this may prevent the...

Network science inspires novel tree shape statistics

The shape of phylogenetic trees can be used to gain evolutionary insights. A tree’s shape specifies the connectivity of a tree, while its branch lengths reflect either the time or genetic distance between branching events; well-known measures of...

2

Caroline Colijn
Network science gives us features of trees, fast to compute! biorxiv.org/content/10.110… ...
450d

A tree distinguishing polynomial

We define a bivariate polynomial for unlabeled rooted trees and show that the
polynomial of an unlabeled rooted tree $T$ is the generating function of a
class of subtrees of $T$. We prove that the polynomial is a complete
isomorphism invariant for...

4

Caroline Colijn
Ever wondered: can I write a tree as a polynomial? which kinds of trees have their very own polynomial? Wonder no more! Indep work by Pengyu Liu in my group
453d

Efficient estimation of evolutionary rates by covariance aware regression

Shared ancestry among individuals results in correlated traits and these dependencies need to be accounted for in probabilistic inference. In strictly asexual populations, the covariances have a particularly simple block-like structure imposed by...