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#COVID19 pandemic

15 Aug 2022 - Rate of spread of BA.2.75

3 Aug 2022 - Virus evolution and seasonality

20 Jul 2022 - Endemic COVID is a substantial health burden

27 Jun 2022 - Recommendations for SARS-CoV-2 vaccine strain update

3 Jun 2022 - Growth in monkeypox cases

28 May 2022 - Relative fitnesses of BA.2.12.1, BA.4 and BA.5

24 May 2022 - Initial characterization of monkeypox genomes

18 Apr 2022 - Emerging variants BA.2.12.1, BA.4 and BA.5

6 Apr 2022 - SARS-CoV-2 continuing evolution and VRBPAC presentation

28 Jan 2022 - BA.2 spreading faster than BA.1

19 Jan 2022 - US case counts peaking

10 Jan 2022 - Case detection rate

5 Jan 2022 - Repeated state-level Omicron epidemics

23 Dec 2021 - How big will Omicron epidemics get?

20 Dec 2021 - Support for Omicron-specific vaccine trials

16 Dec 2021 - Incipient Omicron epidemics

13 Dec 2021 - Displacement vs co-circulation of Delta

11 Dec 2021 - Rt of Omicron in the US and Germany

9 Dec 2021 - Rt of Omicron in the UK

4 Dec 2021 - Rt of Omicron in South Africa

2 Dec 2021 - Omicron spread through repeated geographic seeding

1 Dec 2021 - Initial estimates of Omicron rate of spread

29 Nov 2021 - Transmissibility vs immune escape in Omicron

26 Nov 2021 - Initial description of Omicron variant

22 Nov 2021 - Vaccination did not drive variant emergence

20 Nov 2021 - Issues with CDC vaccination tracker

16 Nov 2021 - Support for broadly available boosters

15 Nov 2021 - SARS-CoV-2 host adaptation slowing

13 Oct 2021 - Predictions for endemicity

11 Oct 2021 - Fitness of Mu variant

13 Sep 2021 - Assessing adaptive evolution in SARS-CoV-2

7 Sep 2021 - Impact of Delta on viral circulation

31 Aug 2021 - Waning immunity and rationale for boosters

30 Jun 2021 - Forecasting size of Delta wave

24 Jun 2021 - Lineage A vs lineage B rooting of early outbreak

22 Jun 2021 - Spread of Delta variant in the US

2 Jun 2021 - COVID origins and the plausibility of “lab leak”

25 May 2021 - Variant spread and competition in the US

11 May 2021 - Increased fitness of B.1.617 lineage and global spread

7 May 2021 - Declining CFR due to vaccination

3 May 2021 - Rise of P.1 lineage in the US

26 Apr 2021 - Decomposing US epidemic into variant and non-variant sub-epidemics

23 Apr 2021 - Improvements to genomic surveillance

14 Apr 2021 - Characterizing variant of concern viruses

18 Feb 2021 - Forecasting the impact of B.1.1.7 on US epidemic

3 Feb 2021 - Comparing evolution observed in SARS-CoV-2 to influenza virus

19 Jan 2021 - Reduced neutralization of 501Y.V2 variant

18 Jan 2021 - Growth of B.1.1.7 across countries

14 Jan 2021 - Repeated evolution of variants of concern

29 Dec 2020 - Increased transmissibility of B.1.1.7

28 Dec 2020 - Bounds on US frequency of B.1.1.7

23 Dec 2020 - Genomic surveillance in the US and the UK

22 Dec 2020 - Early assessment of B.1.1.7

19 Dec 2020 - Potential for antigenic drift in SARS-CoV-2

17 Dec 2020 - Impact of Thanksgiving on case counts

11 Dec 2020 - Plateauing epidemic in the US

9 Dec 2020 - COVID-19 mortality across time and by age

3 Dec 2020 - Mortality projections were accurate

30 Nov 2020 - SARS-CoV-2 not circulating in the US in fall 2019

25 Nov 2020 - Update on circulation in the US

19 Nov 2020 - Lag-adjusted CFR in more detail

13 Nov 2020 - Society vs the virus

10 Nov 2020 - Calculation of lag-adjusted CFR

6 Nov 2020 - Exponential growth in the US

1 Nov 2020 - Sequencing the White House COVID-19 outbreak

19 Oct 2020 - Correlation structure across states

8 Aug 2020 - Fraction of FL, TX, AZ infected

7 Aug 2020 - Population immunity curbing transmission

22 Jul 2020 - Estimating reporting rate from seroprevalence

17 Jul 2020 - Reopening, societal behavior and Rt update

3 Jul 2020 - Reopening, societal behavior and Rt

19 Jun 2020 - Shifting age distribution

17 Jun 2020 - Social settings driving transmission

8 Jun 2020 - Ways to mitigate an epidemic

7 Jun 2020 - Speculation on transmission from protests

2 Jun 2020 - Measuring exposure

2 Jun 2020 - Initial SARS-CoV-2 genome sequencing from Wuhan

1 Jun 2020 - The role of the WHO in influenza vaccine strain selection

25 May 2020 - WA1 was not the introduction

16 May 2020 - Nextstrain team appreciation

12 May 2020 - Genomic history of SARS-CoV-2 in the US

8 May 2020 - Importance of R0 and IFR to policy decisions

5 May 2020 - Uncertainty in impact of D614G

30 Apr 2020 - The long plateau

26 Apr 2020 - Contact tracing as mitigation

24 Apr 2020 - Innovative approaches to scaling up testing

23 Apr 2020 - Seroprevalence in NYC

22 Apr 2020 - Feb 6 death in Santa Clara

17 Apr 2020 - Seroprevalence in Santa Clara

16 Apr 2020 - Speed of contact tracing

12 Apr 2020 - Not circulating in the US in the fall

8 Apr 2020 - Social distancing and estimates of Rt

7 Apr 2020 - Total infections and sero-epi studies

31 Mar 2020 - NextTrace announcement thread

30 Mar 2020 - Not 8 strains

27 Mar 2020 - Genomic epi and introduction patterns

24 Mar 2020 - Predicted antigenic drift of SARS-CoV-2

18 Mar 2020 - Apollo program

13 Mar 2020 - US seeding events

6 Mar 2020 - L vs S “strains”

6 Mar 2020 - Projections for Seattle in early March

29 Feb 2020 - Cryptic transmission in WA

25 Feb 2020 - Containment has failed

20 Feb 2020 - Zoonosis vs lab escape

9 Feb 2020 - Phylodynamic estimate of epidemic size

8 Feb 2020 - General seeding theory

2 Feb 2020 - Genetic differences fit with natural evolution

1 Feb 2020 - Debunking HIV “inserts”

12 Jan 2020 - Phylogeny of first 6 genomes

11 Jan 2020 - Phylogenetic placement of first genome shared