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Funding (1)

Developing the next generation of epidemiological analytics using individual-level virologic and serologic data

2022-09-05 to 2027-09-04 | Grant
Wellcome Trust (London, UK, GB)
GRANT_NUMBER:

225001/Z/22/Z

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WT Grant Tracker

Works (37)

Enhanced testing can substantially improve defense against several types of respiratory virus pandemic

Epidemics
2025-03 | Journal article
Contributors: James Petrie; James A. Hay; Oraya Srimokla; Jasmina Panovska-Griffiths; Charles Whittaker; Joanna Masel
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Crossref

Reconstructed influenza A/H3N2 infection histories reveal variation in incidence and antibody dynamics over the life course

PLOS Biology
2024-11-07 | Journal article
Contributors: James A. Hay; Jonathan Dushoff; Huachen Zhu; Chao Qiang Jiang; Kin On Kwok; Ruiyin Shen; Adam Kucharski; Bingyi Yang; Jonathan M. Read; Justin Lessler et al.
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Crossref

Nowcasting epidemic trends using hospital- and community-based virologic test data

2024-11-02 | Preprint
Contributors: Tse Yang Lim; Sanjat Kanjilal; Shira Doron; Jessica Penney; Meredith Haddix; Tae Hee Koo; Phoebe Danza; Rebecca Fisher; Yonatan H. Grad; James A. Hay
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Crossref

Reconstructed influenza A/H3N2 infection histories reveal variation in incidence and antibody dynamics over the life course

2024-03-18 | Preprint
Contributors: James A. Hay; Huachen Zhu; Chao Qiang Jiang; Kin On Kwok; Ruiyin Shen; Adam Kucharski; Bingyi Yang; Jonathan M. Read; Justin Lessler; Derek A. T. Cummings et al.
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Crossref

Modelling serological data using reversible jump Markov chain Monte Carlo

2024-02-14 | Preprint
Contributors: David Hodgson; James Hay; Adam J. Kucharski
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Enhanced testing can substantially improve defence against several types of respiratory virus pandemic

2024-02-13 | Preprint
Contributors: James Petrie; James A. Hay; Oraya Srimokla; Jasmina Panovska-Griffiths; Charles Whittaker; Joanna Masel
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Crossref

Serodynamics: a review of methods for epidemiological inference using serological data

2023-11-21 | Preprint
Contributors: James Hay; Isobel Routledge; Saki Takahashi
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Viral kinetics of sequential SARS-CoV-2 infections

Nature Communications
2023-10-05 | Journal article
Contributors: Stephen M. Kissler; James A. Hay; Joseph R. Fauver; Christina Mack; Caroline G. Tai; Deverick J. Anderson; David D. Ho; Nathan D. Grubaugh; Yonatan H. Grad
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Crossref

serosim: An R package for simulating serological data arising from vaccination, epidemiological and antibody kinetics processes

PLOS Computational Biology
2023-08-14 | Journal article
Contributors: Arthur Menezes; David S. Khoury; Saki Takahashi; Isobel Routledge; C. Jessica E. Metcalf; Andrea L. Graham; James A. Hay
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Crossref

Viral kinetics of sequential SARS-CoV-2 infections

2023-03-06 | Preprint
Contributors: Stephen M Kissler; James A Hay; Joseph R Fauver; Christina Mack; Caroline G Tai; Deverick J Anderson; David D Ho; Nathan D Grubaugh; Yonatan H Grad
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Crossref

serosim: an R package for simulating serological survey data arising from vaccination, epidemiological and antibody kinetics processes

2023-01-28 | Preprint
Contributors: Arthur Menezes; Saki Takahashi; Isobel Routledge; C. Jessica E. Metcalf; Andrea L. Graham; James A. Hay
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Crossref

Long term intrinsic cycling in human life course antibody responses to influenza A(H3N2): an observational and modeling study

eLife
2022-12-02 | Journal article
Contributors: Bingyi Yang; Bernardo García-Carreras; Justin Lessler; Jonathan M Read; Huachen Zhu; C Jessica E Metcalf; James A Hay; Kin O Kwok; Ruiyun Shen; Chao Q Jiang et al.
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Crossref

Quantifying the impact of immune history and variant on SARS-CoV-2 viral kinetics and infection rebound: A retrospective cohort study

eLife
2022-11-16 | Journal article
Contributors: James A Hay; Stephen M Kissler; Joseph R Fauver; Christina Mack; Caroline G Tai; Radhika M Samant; Sarah Connolly; Deverick J Anderson; Gaurav Khullar; Matthew MacKay et al.
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Crossref

Long-term intrinsic cycling in human life-course antibody responses to influenza A(H3N2)

2022-06-27 | Preprint
Contributors: Bingyi Yang; Bernardo Garcia-Carreras; Justin Lessler; Jonathan M. Read; Huachen Zhu; C. Jessica E. Metcalf; James A. Hay; Kin On Kwok; Ruiyin Shen; Chao Qiang Jiang et al.
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Crossref

Near real-time surveillance of the SARS-CoV-2 epidemic with incomplete data

PLOS Computational Biology
2022-03-31 | Journal article
Contributors: Pablo M. De Salazar; Benjamin Althouse; Fred Lu; James A Hay; Diana Gómez-Barroso; Pablo Fernández-Navarro; Elena V Martínez; Jenaro Astray-Mochales; Rocío Amillategui; Ana García-Fulgueiras et al.
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Crossref

Quantifying the impact of immune history and variant on SARS-CoV-2 viral kinetics and infection rebound: a retrospective cohort study

2022-01-14 | Preprint
Contributors: James A. Hay; Stephen M. Kissler; Joseph R. Fauver; Christina Mack; Caroline G. Tai; Radhika M. Samant; Sarah Connolly; Deverick J. Anderson; Gaurav Khullar; Matthew MacKay et al.
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Crossref

Viral loads observed under competing strain dynamics

2021-07-30 | Other
Contributors: James A. Hay; Lee Kennedy-Shaffer; Michael J. Mina
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When intuition falters: repeated testing accuracy during an epidemic

European Journal of Epidemiology
2021-07-28 | Journal article
Contributors: James A. Hay; Joel Hellewell; Xueting Qiu
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Estimating epidemiologic dynamics from cross-sectional viral load distributions

Science
2021-07-16 | Journal article
Contributors: James A. Hay; Lee Kennedy-Shaffer; Sanjat Kanjilal; Niall J. Lennon; Stacey B. Gabriel; Marc Lipsitch; Michael J. Mina
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Crossref

Using viral load and epidemic dynamics to optimize pooled testing in resource-constrained settings

Science Translational Medicine
2021-04-14 | Journal article
Contributors: Brian Cleary; James A. Hay; Brendan Blumenstiel; Maegan Harden; Michelle Cipicchio; Jon Bezney; Brooke Simonton; David Hong; Madikay Senghore; Abdul K. Sesay et al.
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Crossref

Test sensitivity is secondary to frequency and turnaround time for COVID-19 screening

Science Advances
2021-01 | Journal article
Contributors: Daniel B. Larremore; Bryan Wilder; Evan Lester; Soraya Shehata; James M. Burke; James A. Hay; Milind Tambe; Michael J. Mina; Roy Parker
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Crossref

Near real-time surveillance of the SARS-CoV-2 epidemic with incomplete data

2021-01-26 | Other
Contributors: PM De Salazar; F Lu; JA Hay; D Gómez-Barroso; P Fernández-Navarro; E Martínez; J Astray-Mochales; R Amillategui; A García-Fulgueiras; MD Chirlaque et al.
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Crossref

Estimating internationally imported cases during the early COVID-19 pandemic

Nature Communications
2021-01-12 | Journal article
Contributors: Tigist F. Menkir; Taylor Chin; James A. Hay; Erik D. Surface; Pablo M. De Salazar; Caroline O. Buckee; Alexander Watts; Kamran Khan; Ryan Sherbo; Ada W. C. Yan et al.
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Practical considerations for measuring the effective reproductive number, Rt

PLOS Computational Biology
2020-12-10 | Journal article
Contributors: Katelyn M. Gostic; Virginia E. Pitzer; Lauren McGough; Edward B. Baskerville; Sam Abbott; Keya Joshi; Christine Tedijanto; Rebecca Kahn; Rene Niehus; James A. Hay et al.
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Frequent testing and immunity-based staffing will help mitigate outbreaks in nursing home settings

2020-11-06 | Other
Contributors: Inga Holmdahl; Rebecca Kahn; James Hay; Caroline O. Buckee; Michael Mina
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Crossref

Estimating epidemiologic dynamics from cross-sectional viral load distributions

2020-10-13 | Other
Contributors: James A. Hay; Lee Kennedy-Shaffer; Sanjat Kanjilal; Niall J. Lennon; Stacey B. Gabriel; Marc Lipsitch; Michael J. Mina
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Crossref

Life course exposures continually shape antibody profiles and risk of seroconversion to influenza

PLOS Pathogens
2020-07-23 | Journal article
Contributors: Bingyi Yang; Colin A. Russell; Justin Lessler; Huachen Zhu; Chao Qiang Jiang; Jonathan M. Read; James A. Hay; Kin On Kwok; Ruiyin Shen; Yi Guan et al.
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Crossref

Stabilizing selection of seasonal influenza receptor binding in populations with partial immunity

2020-06-29 | Preprint
Contributors: James A. Hay; Alvin Junus; Steven Riley; Hsiang-Yu Yuan
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Crossref

Test sensitivity is secondary to frequency and turnaround time for COVID-19 surveillance

2020-06-25 | Other
Contributors: Daniel B. Larremore; Bryan Wilder; Evan Lester; Soraya Shehata; James M. Burke; James A. Hay; Milind Tambe; Michael J. Mina; Roy Parker
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Crossref

Practical considerations for measuring the effective reproductive number, Rt

2020-06-21 | Other
Contributors: Katelyn M. Gostic; Lauren McGough; Edward B. Baskerville; Sam Abbott; Keya Joshi; Christine Tedijanto; Rebecca Kahn; Rene Niehus; James Hay; Pablo M. De Salazar et al.
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Crossref

Using viral load and epidemic dynamics to optimize pooled testing in resource constrained settings

2020-05-06 | Other
Contributors: Brian Cleary; James A. Hay; Brendan Blumenstiel; Maegan Harden; Michelle Cipicchio; Jon Bezney; Brooke Simonton; David Hong; Madikay Senghore; Abdul K. Sesay et al.
Source: check_circle
Crossref

An open source tool to infer epidemiological and immunological dynamics from serological data: serosolver

PLOS Computational Biology
2020-05-04 | Journal article
Contributors: James A. Hay; Roland R Regoes; Amanda Minter; Kylie E. C. Ainslie; Justin Lessler; Bingyi Yang; Derek A. T. Cummings; Adam J. Kucharski; Steven Riley
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Crossref

Estimating internationally imported cases during the early COVID-19 pandemic

2020-03-26 | Other
Contributors: Tigist F. Menkir; Taylor Chin; James Hay; Erik D. Surface; Pablo M. De Salazar; Caroline O. Buckee; Alexander Watts; Kamran Khan; Ryan Sherbo; Ada W. C. Yan et al.
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Crossref

Characterising antibody kinetics from multiple influenza infection and vaccination events in ferrets

PLOS Computational Biology
2019-08-19 | Journal article
Contributors: James A. Hay; Rustom Antia; Karen Laurie; Michael White; Steven Riley
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Crossref

Serosolver: an open source tool to infer epidemiological and immunological dynamics from serological data

2019-08-08 | Other
Contributors: James A. Hay; Amanda Minter; Kylie Ainslie; Justin Lessler; Adam J. Kucharski; Steven Riley
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Potential inconsistencies in Zika surveillance data and our understanding of risk during pregnancy

PLoS neglected tropical diseases
2018 | Journal article
Source: Self-asserted source
James A Hay

Characterising antibody kinetics from multiple influenza infection and vaccination events in ferrets

2018-09-07 | Other
Contributors: James A. Hay; Karen Laurie; Michael White; Steven Riley
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Crossref

Peer review (24 reviews for 14 publications/grants)

Review activity for Clinical infectious diseases : (1)
Review activity for Communications medicine. (2)
Review activity for Nature communications (5)
Review activity for Nature computational science. (1)
Review activity for Nature medicine. (1)
Review activity for Nature reviews. (1)
Review activity for npj digital medicine. (1)
Review activity for PLoS computational biology. (4)
Review activity for PloS one. (2)
Review activity for PLOS pathogens : (2)
Review activity for Science translational medicine. (1)
Review activity for The Journal of infection. (1)
Review activity for Vaccine. (1)
Review activity for Wellcome open research. (1)