COVID-19 publications
Since the emergence of the new coronavirus (COVID-19) in December 2019, we have adopted a policy of immediately sharing research findings on the developing pandemic. This page provides an overview of all publications by the Imperial College COVID-19 Response Team. This includes papers based on the online reports.
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OJ Watson, G Barnsley, J Toor, AB Hogan, P Winskill, AC Ghani. Global impact of the first year of COVID-19 vaccination: a mathematical modelling study. The Lancet Infectious Diseases, 23-06-2022. doi: https://doi.org/10.1016/S1473-3099(22)00320-6
A Brizzi, C Whitaker, LMS Servo et al. Spatial and temporal fluctuations in COVID-19 fatality rates in Brazilian hospitals. Nature Medicine, 10 May 2022. doi: https://doi.org/10.1038/s41591-022-01807-1
E Lavezzo, M Pacenti, L Manuto et al. Neutralising reactivity against SARS-CoV-2 Delta and Omicron variants by vaccination and infection history. BMC Genome Medicine, 10 June 2022. doi: https://doi.org/10.1186/s13073-022-01066-2
L Sibissi, A von Gottberg, L Thukral et al. An early warning system for emerging SARS-CoV-2 variants. Nature Medicine, 30 May 2022. doi: https://doi.org/10.1038/s41591-022-01836-w
P Elliot, O Eales, N Steyn et al. Twin peaks: The Omicron SARS-CoV-2 BA.1 and BA.2 epidemics in England. Science, 24-05-2022. doi: https://doi.org/10.1126/science.abq4411
M Drolet, A Godbout, M Mondor et al. Time trends in social contacts before and during the COVID-19 pandemic: the CONNECT study. BMC Public Health, 23 May 2022. doi: https://doi.org/10.1186/s12889-022-13402-7
S Mandal, K Parchani, N Arinaminpathy, S Sarkar, B Bhargava, S Panda. ‘Imperfect but useful’: pandemic response in the Global South can benefit from greater use of mathematical modelling. BMJ Global Health, 11 May 2022. doi: http://dx.doi.org/10.1136/bmjgh-2022-008710
G Leech, C Rogers-Smith, J Teperowski Monrad et al. Mask wearing in community settings reduces SARS-CoV-2 transmission. PNAS, 31 May 2022. doi: https://doi.org/10.1073/pnas.211926611
L Subissi, A von Gottberg, L Thukral et al. An early warning system for emerging SARS-CoV-2 variants. Nature Medicine, 30 May 2022. doi: https://doi.org/10.1038/s41591-022-01836-w
NF Brazeau, R Verity, S Jenks et al. Estimating the COVID-19 infection fatality ratio accounting for seroreversion using statistical modelling. Nature Communications Medicine, 19 May 2022. doi: https://doi.org/10.1038/s43856-022-00106-7
L Lenggenhager, R Martischang, J Sauser et al. Occupational and community risk of SARS-CoV-2 infection among employees of a long-term care facility: an observational study. BMC Antimicrobial Resistance & Infection Control, 18 March 2022. doi: https://doi.org/10.1186/s13756-022-01092-0
M Chadeau-Hyam, O Eales, B Bodinier et al. Breakthrough SARS-CoV-2 infections in double and triple vaccinated adults and single dose vaccine effectiveness among children in Autumn 2021 in England: REACT-1 study. eClinicalMedicine, June 2022. doi: https://doi.org/10.1016/j.eclinm.2022.101419
H Xin, Y Li, P Wu et al. Estimating the Latent Period of Coronavirus Disease 2019 (COVID-19). Clinical Infectious Diseases, 1 May 2022. doi: https://doi.org/10.1093/cid/ciab746
D. Haw, G Forchini, P Doohan et al. Optimizing social and economic activity while containing SARS-CoV-2 transmission using DAEDALUS. Nature Computational Science, 28-04-2022. doi: https://doi.org/10.1038/s43588-022-00233-0
M Whitaker, J Elliott, M Chadeau-Hyam et al. Persistent COVID-19 symptoms in a community study of 606,434 people in England. Nature Communications, 12-04-2022. doi: https://doi.org/10.1038/s41467-022-29521-z
EY Cramer, EL Ray, VK Lopez et al. Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the United States. PNAS, 08-04-2022. doi: https://doi.org/10.1073/pnas.2113561119
M Pons-Salort, J John, OJ Watson et al. Reassessing Reported Deaths and Estimated Infection Attack Rate during the First 6 Months of the COVID-19 Epidemic, Delhi, India. Emerging Infectious Diseases, 04-04-2022. doi: https://doi.org/10.3201/eid2804.210879
B Killingley, AJ Mann, M Kalinova et al. Safety, tolerability and viral kinetics during SARS-CoV-2 human challenge in young adults. Nature medicine, 31-03-2022. doi: https://doi.org/10.1038/s41591-022-01780-9
L Lenggenhager, R Martischang, J Sauser et al. Occupational and community risk of SARS-CoV-2 infection among employees of a long-term care facility: an observational study. BMC Antimicrobial Resistance & Infection Control, 18 March 2022. doi: https://doi.org/10.1186/s13756-022-01092-0
A Brizzi, M O’Driscoll, I Dorigatti. Refining reproduction number estimates to account for unobserved generations of infection in emerging epidemics. Clinical Infectious Diseases, 17 February 2022. doi: https://doi.org/10.1093/cid/ciac138
T Nyberg, NM Ferguson, SG Nash et al. Comparative analysis of the risks of hospitalisation and death associated with SARS-CoV-2 omicron (B.1.1.529) and delta (B.1.617.2) variants in England: a cohort study. The Lancet, 16 March 2022. doi: https://doi.org/10.1016/S0140-6736(22)00462-7
D Olivera Mesa, AB Hogan, OJ Watson GD Charles, K Hauck, A Ghani, P Winskill. Modelling the impact of vaccine hesitancy in prolonging the need for Non-Pharmaceutical Interventions to control the COVID-19 pandemic. Nature Communications, 10 February 2022. doi: https://doi.org/10.1038/s43856-022-00075-x
D Aggarwal, AJ Page, U Schaefer et al. Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 23-02-2022. doi: https://doi.org/10.1038/s41467-022-28371-z
L Manuto, M Grazioli,A Spitaleri et al. Rapid SARS-CoV-2 Intra-Host and Within-Household Emergence of Novel Haplotypes. Viruses, 15-02-2022. doi: https://doi.org/10.3390/v14020399
HJT Unwin, S Hillis, L Cluver et al. Global, regional, and national minimum estimates of children affected by COVID-19-associated orphanhood and caregiver death, by age and family circumstance up to Oct 31, 2021: an updated modelling study. The Lancet Child & Adolescent Health, 24-02-2022. doi: https://doi.org/10.1016/S2352-4642(22)00005-0
H Ward, M Whitaker, B Flower et al. Population antibody responses following COVID-19 vaccination in 212,102 individuals. Nature Communications (16-02-2022). doi: https://doi.org/10.1038/s41467-022-28527-x
LF Reyes, S Murthi E Garcia-Gallo et al. Clinical characteristics, risk factors and outcomes in patients with severe COVID-19 registered in the International Severe Acute Respiratory and Emerging Infection Consortium WHO clinical characterisation protocol: a prospective, multinational, multicentre, observational study. ERJ Open Research (14-02-2022). doi: https://doi.org/10.1183/23120541.00552-2021
P Elliot, B Bodinier, O Eales et al. Rapid increase in Omicron infections in England during December 2021: REACT-1 study. Science (08-02-2022). doi: https://doi.org/10.1126/science.abn8347
M Ghafari, L du Plessis, J Raghwani et al. Purifying Selection Determines the Short-Term Time Dependency of Evolutionary Rates in SARS-CoV-2 and pH1N1 Influenza. Molecular Biology and Evolution, 17 January 2022. doi: https://doi.org/10.1093/molbev/msac009
JD Challenger, CY Foo, Y Wu et al. Modelling upper respiratory viral load dynamics of SARS-CoV-2. BMC Medicine, 13 January 2022. doi: https://doi.org/10.1186/s12916-021-02220-0
CA Prete, LF Buss, R Buccheri et al. Reinfection by the SARS-CoV-2 Gamma variant in blood donors in Manaus, Brazil. BMC Infectious Diseases, 05-02-2022. doi: https://doi.org/10.1186/s12879-022-07094-y
BB Lindsey, CJ Villabona-Arenas, F Campbell et al. Characterising within-hospitalSARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves. Nature Communications, 3 February 2022. doi: https://doi.org/10.1038/s41467-022-28291-y
M Chadeau-Hyam, H Wang, O Eales et al. SARS-CoV-2 infection and vaccine effectiveness in England (REACT-1): a series of cross-sectional random community surveys. The Lancet Respiratory Medicine, 24-01-2022. doi: https://doi.org/10.1016/S2213-2600(21)00542-7
T Mourier, M Shuaib, S Hala et al. SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load. Nature Communications, 1 January 2022. doi: https://doi.org/10.1038/s41467-022-28287-8
P Mee, N Alexander, P Mayaud t al. Tracking the emergence of disparities in the subnational spread of COVID-19 in Brazil using an online application for real-time data visualisation: A longitudinal analysis. The Lancet Regional Health – Americas, January 2022. doi: https://doi.org/10.1016/j.lana.2021.100119
KV Parag, BJ Cowling, CA Donnelly. Deciphering early-warning signals of SARS-CoV-2 elimination and resurgence from limited data at multiple scales. Journal of the Royal Society, 15-12-2021. doi: https://doi.org/10.1098/rsif.2021.0569
L Scott, NY Hsiao, S Moyo et al. Track Omicron’s spread with molecular data. Science, 9-12-2021. doi: https://doi.org/10.1126/science.abn4543
H Houston, S Hakki, TD Pillay et al. Broadening symptom criteria improves early case identification in SARS-CoV-2 contacts. European Respiratory Journal 2021. doi: https://doi.org/10.1183/13993003.02308-2021
VC Nicolete, PT Rodrigues, IC Johansen et al. Interacting Epidemics in Amazonian Brazil: Prior Dengue Infection Associated With Increased Coronavirus Disease 2019 (COVID-19) Risk in a Population-Based Cohort Study. Clinical Infectious Diseases, 01-12-2021. doi: https://doi.org/10.1093/cid/ciab410
EA Kendall, N Arinaminpathy, JA Sacks et al. Antigen-based Rapid Diagnostic Testing or Alternatives for Diagnosis of Symptomatic COVID-19 – A Simulation-based Net Benefit Analysis. Epidemiology, 11-2021. doi: https://doi.org/10.1097/EDE.0000000000001400
ISARIC Clinical Characterisation Group, MD Hall, J Baruch et al. Ten months of temporal variation in the clinical journey of hospitalised patients with COVID-19: an observational cohort. eLife, 23-11-2021.doi: https://doi.org/10.7554/eLife.70970
P Elliot, D Haw, H Wang et al. Exponential growth, high prevalence of SARS-CoV-2, and vaccine effectiveness associated with the Delta variant. Science, 02-11-2021. doi: https://doi.org/10.1126/science.abl9551
R McCabe, MD Kont, N Schmit et al. Communicating uncertainty in epidemic models. Epidemics, 02-11-2021. Doi: https://doi.org/10.1016/j.epidem.2021.100520
D Gurdasani, S Bhatt, A Costello et al. Vaccinating adolescents against SARS-CoV-2 in England: a risk–benefit analysis. Journal of the Royal Society of Medicine, 01-11-2021. doi: https://doi.org/10.1177/01410768211052589
A Singanayagam, S Hakki, J Dunning et al. Community transmission and viral load kinetics of the SARS-CoV-2 delta (B.1.617.2) variant in vaccinated and unvaccinated individuals in the UK: a prospective, longitudinal, cohort study. The Lancet, 28-10-2021. doi: https://doi.org/10.1016/S1473-3099(21)00648-4
LR Williams NM Ferguson, CA Donnelly, NC Grassly. Measuring vaccine efficacy against infection and disease in clinical trials: sources and magnitude of bias in COVID-19 vaccine efficacy estimates. Clinical Infectious Diseases, 26-10-2021. Doi: https://doi.org/10.1093/cid/ciab914/
R Sonabend, LK Whittles, N Imai et al. Non-pharmaceutical interventions, vaccination, and the SARS-CoV-2 delta variant in England: a mathematical modelling study. The Lancet, 27-10-2021. doi: https://doi.org/10.1016/S0140-6736(21)02276-5
LR Williams, NM Ferguson, CA Donnelly, NC Grassly. Measuring vaccine efficacy against infection and disease in clinical trials: sources and magnitude of bias in COVID-19 vaccine efficacy estimates. Clinical Infectious Diseases, 26-10-2021. doi: https://doi.org/10.1093/cid/ciab914
WM de Souza, SP Muraro, GF Souza et al. Clusters of SARS-CoV-2 Lineage B.1.1.7 Infection after Vaccination with Adenovirus-Vectored and Inactivated Vaccines. Viruses, 22-10-2021. doi: https://doi.org/10.3390/v13112127
G Milne, T Hames, C Scotton et al. Does infection with or vaccination against SARS-CoV-2 lead to lasting immunity? The Lancet Respiratory Medicine, 21-10-2021. Doi: https://doi.org/10.1016/S2213-2600(21)00407-0
HS Vohringer, T Sanderson, M Sinnott et al. Genomic reconstruction of the SARS-CoV-2 epidemic in England. Nature, 14-10-2021. doi: https://doi.org/10.1038/s41586-021-04069-y
MS Dhar, R Marwal, VS Radhakrishnan et al. Genomic characterization and epidemiology of an emerging SARS-CoV-2 variant in Delhi, India. Science, 14-10-2021. doi: https://doi.org/10.1126/science.abj9932
RM Anderson, C Vegvari, TD Hollingsworth et al. The SARS-CoV-2 pandemic: remaining uncertainties in our understanding of the epidemiology and transmission dynamics of the virus, and challenges to be overcome. Interface Focus, 12-10-2021. Doi: https://doi.org/10.1098/rsfs.2021.0008
C Whittacker, PGT Walker, M Alhaffar et al. Under-reporting of deaths limits our understanding of true burden of COVID-19. The BMJ, 12-10-2021. Doi: https://doi.org/10.1136/bmj.n2239
Y Mo, DW Eyre, SF Lumley et al. Transmission of community- and hospital-acquired SARS-CoV-2 in hospital settings in the UK: A cohort study. PLoS Medicine, 12-10-2021. doi: https://doi.org/10.1371/journal.pmed.1003816
R McCabe, CA Donnelly. Disease transmission and control modelling at the science–policy interface. Interface Focus, 12-10-2021. doi: https://doi.org/10.1098/rsfs.2021.0013
SD Hillis, A Blenkinsop, A Villaveces A et al. COVID-19-associated Orphanhood and Caregiver Death in the United States. Pediatrics 07-10-2021. doi: https://doi.org/10.1542/peds.2021-053760
J Ohrnberger, A Segal, G Forchini et al. The impact of a COVID-19 lockdown on work productivity under good and poor compliance. European Journal of Public Health, 05-10-2021. Doi: https://doi.org/10.1093/eurpub/ckab138
M Sharma, S Mindermann, C Rogers-Smith et al. Understanding the effectiveness of government interventions against the resurgence of COVID-19 in Europe. Nature, 05-10-2021. doi: https://doi.org/10.1038/s41467-021-26013-4
B Davies, M Araghi, M Moshe et al. Acceptability, Usability, and Performance of Lateral Flow Immunoassay Tests for Severe Acute Respiratory Syndrome Coronavirus 2 Antibodies: REACT-2 Study of Self-Testing in Nonhealthcare Key Workers. Open Forum Infectious Diseases, 04-10-2021. doi: https://doi.org/10.1093/ofid/ofab496
WM Souza, MR Amorim, R Sesti-Costa et al. Neutralisation of SARS-CoV-2 lineage P.1 by antibodies elicited through natural SARS-CoV-2 infection or vaccination with an inactivated SARS-CoV-2 vaccine: an immunological study. The Lancet Microbe, 01-10-2021. doi: https://doi.org/10.1016/S2666-5247(21)00129-4
A Desai, P Nouvellet, S Bhatia, A Cori, B Lassmann. Data journalism and the COVID-19 pandemic: opportunities and challenges. Lancet Digital Health, 01-10-2021. doi: https://doi.org/10.1016/S2589-7500(21)00178-3
J Elliott, M Whitaker, B Bodinier et al. Predictive symptoms for COVID-19 in the community: REACT-1 study of over 1 million people. PLOS Medicine, 28-09-2021. doi: https://doi.org/10.1371/journal.pmed.1003777
NA Molodecky, H Jafari, RM Safdar et al. Modelling the spread of serotype-2 vaccine derived-poliovirus outbreak in Pakistan and Afghanistan to inform outbreak control strategies in the context of the COVID-19 pandemic. Vaccine, 25-09-2021. doi: https://doi.org/10.1016/j.vaccine.2021.09.037
MAC Vollmer, S Radhakrishnan, MD Kont et al. The impact of the COVID-19 pandemic on patterns of atendance at emergency departments in two large London hospitals: an observational study. BMC Health Services Research, 23-09-2021. Doi: https://doi.org/10.1186/s12913-021-07008-9
H Xin, Y Li, P Wu et al. Estimating the Latent Period of Coronavirus Disease 2019 (COVID-19). Clinical Infectious Diseases, 22-09-2021. Doi: https://doi.org/10.1093/cid/ciab746
C Whittaker, OJ Watson, C Alvarez-Moreno et al. Understanding the Potential Impact of Different Drug Properties on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Transmission and Disease Burden: A Modelling Analysis. Clinical Infectious Diseases, 21-09-2021. doi: https://doi.org/10.1093/cid/ciab837
A O’Toole, V Hill, OG Pybus et al. Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch. Wellcome Open Research, 17-09-2021. doi: https://doi.org/10.12688/wellcomeopenres.16661.2
S Mishra, JA Scott, DJ Laydon et al. Comparing the responses of the UK, Sweden and Denmark to COVID-19 using counterfactual modelling. Scientific Reports, 11-09-2021. doi: https://doi.org/10.1038/s41598-021-95699-9
P Mlcochova, SA Kemp, MS Dhar et al. SARS-CoV-2 B.1.617.2 Delta variant replication and immune evasion. Nature, 06-09-2021. doi: https://doi.org/10.1038/s41586-021-03944-y
S Mishra, S Mindermann, M Sharma et al. Changing composition of SARS-CoV-2 lineages and rise of Delta variant in England. Lancet EClinicalMedicine, 01-09-2021. doi: https://doi.org/10.1016/j.eclinm.2021.101064
H Wilde, T Mellan, I Hawryluk et al. The association between mechanical ventilator compatible bed occupancy and mortality risk in intensive care patients with COVID-19: a national retrospective cohort study. BMC Medicine, 30-08-2021. doi: https://doi.org/10.1186/s12916-021-02096-0
MUG Kraemer, V Hill, C Ruis et al. Spatiotemporal invasion dynamics of SARS-CoV-2 lineage B.1.1.7 emergence. Science, 19-08-2021. doi: https://doi.org/10.1126/science.abj0113
J. D’Aeth, S Ghosal, F Grimm, et al. Optimal national prioritization policies for hospital care during the SARS-CoV-2 pandemic. Nature Computational Science, 13-08-2021. Doi: https://doi.org/10.1038/s43588-021-00111-1
S Mishra, JA Scott, DJ Laydon et al. Comparing the responses of the UK, Sweden and Denmark to COVID-19 using counterfactual modelling. Nature Sci Rep, 11-08-2021. doi: https://doi.org/10.1038/s41598-021-95699-9
T Mangal, C Whittaker, D Nkhoma et al. Potential impact of intervention strategies on COVID-19 transmission in Malawi: a mathematical modelling study. BMJ Open, 22-07-2021. doi: http://dx.doi.org/10.1136/bmjopen-2020-045196
S Hillis, HJT Unwin, Y Chen et al. Global minimum estimates for COVID-19-associated orphanhood and deaths among caregivers: a modelling study. Lancet, 20-07-2021. doi: https://doi.org/10.1016/S0140-6736(21)01253-8
I Dorigatti, E Lavezzo, L Manuto et al. SARS-CoV-2 antibody dynamics and transmission from community-wide serological testing in the Italian municipality of Vo’. Nature Communications, 19-07-2021. doi: https://doi.org/10.1038/s41467-021-24622-7
E Knock, L Whittles, J Lees, et al. Key epidemiological drivers and impact of interventions in the 2020 SARS-CoV-2 epidemic in England. Science Translational Medicine. 14-07-2021 DOI: https://doi.org/10.1126/scitranslmed.abg4262
KAM Gaythorpe, S Bhatia, T Mangal et al. Children’s role in the COVID-19 pandemic: a systematic review of early surveillance data on susceptibility, severity, and transmissibility. Nature Scientific Reports, 06-07-2021. Doi: https://doi.org/10.1038/s41598-021-92500-9
S Mandal, N Arinaminpathy, B Bhargava, S Panda. India’s pragmatic vaccination strategy against COVID-19: a mathematical modelling-based analysis. BMJ Open, 02-07-2021. doi: https://doi.org/10.1136/bmjopen-2021-048874
R Silhol, L Geidelberg, KM Mitchell et al. Assessing the Potential Impact of Disruptions Due to COVID-19 on HIV Among Key and Lower-Risk Populations in the Largest Cities of Cameroon and Benin. JAIDS, 01-07-2021. doi: https://doi.org/10.1097/QAI.0000000000002663
S Mandal, N Arinaminpathy, B Bhargava, S Panda. Responsive and agile vaccination strategies against COVID-19 in India. The Lancet Global Health, 01-07-2021. doi: https://doi.org/10.1016/S2214-109X(21)00284-9
ISARIC Clinical Characterisation Group (including Donnelly CA). COVID-19 symptoms at hospital admission vary with age and sex: results from the ISARIC prospective multinational observational study. Infection, 25-06-2021. doi: https://doi.org/10.1007/s15010-021-01599-5
TP Smith, S Flaxman, AS Gallinat et al. Temperature and population density influence SARS-CoV-2 transmission in the absence of nonpharmaceutical interventions. PNAS, 22-06-2021. doi: https://doi.org/10.1073/pnas.2019284118
BA Djaafara, C Whittaker, OJ Watson et al. Using syndromic measures of mortality to capture the dynamics of COVID-19 in Java, Indonesia, in the context of vaccination rollout. BMC Medicine, 18-06-2021. doi: https://doi.org/10.1186/s12916-021-02016-2
MS Kiti, OGAguolu, CY Liu et al. Social contact patterns among employees in 3 U.S. companies during early phases of the COVID-19 pandemic, April to June 2020. Epidemics, 17-06-2021. doi: https://doi.org/10.1016/j.epidem.2021.100481
N Arinaminpathy, J Das, TH McCormick, P Mukhopadhyay, N Sircar. Quantifying heterogeneity in SARS-CoV-2 transmission during the lockdown in India. Epidemics, 17-06-2021. doi: https://doi.org/10.1016/j.epidem.2021.100477
S Bhatia, N Imai, G Cuomo-Dannenburg et al. Estimating the number of undetected COVID-19 cases among travellers from mainland China. Wellcome Open Research, 15-06-2021. doi: https://doi.org/10.12688/wellcomeopenres.15805.2
B Meng, SA Kemp, G Papa et al. Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7. Cell Reports, 08-06-2021. doi: https://doi.org/10.1016/j.celrep.2021.109292
S Mandal, N Arinaminpathy, B Bhargava, S Panda. Plausibility of a third wave of COVID-19 in India. Indian Journal of Medical Research, 05/06-2021. doi: https://doi.org/10.4103/ijmr.ijmr_1627_21
E Brooks-Pollock, L Danon, T Jombart, L Pellis. Modelling that shaped the early COVID-19 pandemic response in the UK. Philosophical Transactions of the Royal Society, 31-05-2021. doi: https://doi.org/10.1098/rstb.2021.0001
T Jombart, S Ghozzi, D Schumacher et al. Real-time monitoring of COVID-19 dynamics using automated trend fitting and anomaly detection. Philosophical Transactions of the Royal Society, 31-05-2021. doi: https://doi.org/10.1098/rstb.2020.0266
S Riley, KEC Ainslie, O Eales et al. Resurgence of SARS-CoV-2 in England: detection by community antigen surveillance. Science, 28-05-2021. doi: https://doi.org/10.1126/science.abf0874
FRR Moreira, DM Bonfim, DAG Zauli et al. Epidemic spread of SARS-CoV-2 lineage B.1.1.7 in Brazil. Viruses, 26-05-2021. doi: https://doi.org/10.3390/v13060984
NR Faria, T Mellan, C Whittaker et al. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil. Science, 21-05-2021. doi: https://doi.org/10.1126/science.abh2644
AB Hogan, P Winskill, OJ Watson et al. Within-country age-based prioritisation, global allocation, and public health impact of a vaccine against SARS-CoV-2: A mathematical modelling analysis. Vaccine, 21-05-2021. doi: https://doi.org/10.1016/j.vaccine.2021.04.002
FA Lovell-Read, S Funk, U Obolski, CA Donnelly, RN Thompson. Interventions targeting non-symptomatic cases can be important to prevent local outbreaks: SARS-CoV-2 as a case study. Journal of the Royal Society Interface, 19-05-2021. doi: https://doi.org/10.1098/rsif.2020.1014
CBF Vogels, MI Breban, IM Ott et al. Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2. PLOS Biology, 07-05-2021. doi: https://doi.org/10.1371/journal.pbio.3001236
H Ward, GS Cooke, C Atchison et al. Prevalence of antibody positivity to SARS-CoV-2 following the first peak of infection in England: serial cross-sectional studies of 365,000 adults. The Lancet Regional Health – Europe 4, 02-05-2021. doi: https://doi.org/10.1016/j.lanepe.2021.100098
SL Li, RHM Pereira, CA Prete Jr et al. Higher risk of death from COVID-19 in low-income and non-White populations of São Paulo, Brazil. BMJ Global Health, 29-04-2021. doi: http://dx.doi.org/10.1136/bmjgh-2021-004959
S Riley, KEC Ainslie, O Eales et al. Resurgence of SARS-CoV-2: detection by community viral surveillance. Science 23-04-2021. doi: https://doi.org/10.1126/science.abf0874
OJ Watson, M Alhaffar, Z Mehchy et al. Leveraging community mortality indicators to infer COVID-19 mortality and transmission dynamics in Damascus, Syria. Nature Communications, 22-04-21. doi: https://doi.org/10.1038/s41467-021-22474-9
DJ Laydon, S Mishra, WR Hinsley et al. Modelling the impact of the tier system on SARS-COV-2 transmission in the UK between the first and second national lockdowns. BMJ Open, 22-04-2021. doi: https://doi.org/10.1136/bmjopen-2021-050346
S Riley, C Atchison, D Ashby et al. (REACT Study Group). Real-time Assessment of Community Transmission (REACT) of SARS-CoV-2 virus: Study protocol. Wellcome Open Research, 21-04-2021. doi: https://doi.org/10.12688/wellcomeopenres.16228.2
M Ragonnet-Cronin, O Boyd, L Geidelberg et al. Genetic evidence for the association between COVID-19 epidemic severity and timing of non-pharmaceutical interventions. Nature Communications, 12-04-21. doi: https://doi.org/10.1038/s41467-021-22366-y
MS Graham, CH Sudre, A May et al. Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study. The Lancet Public Health, 12-04-2021. doi: https://doi.org/10.1016/S2468-2667(21)00055-4
R McCabe, MD Kont, N Schmit et al. Modelling intensive care unit capacity under different epidemiological scenarios of the COVID-19 pandemic in three Western European countries. International Journal of Epidemiology, 09-04-21, doi: https://doi.org/10.1093/ije/dyab034
E Volz, S Mishra, M Chand et al. Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature. 25-03-2021. https://doi.org/10.1038/s41586-021-03470-x
L. Geidelberg, O Boyd, D Jorgensen et al. Genomic epidemiology of a densely sampled COVID-19 outbreak in China. Virus Evolution, 14-03-2021. doi: https://doi.org/10.1093/ve/veaa102
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S Riley, CE Walters, H Wang et al. REACT-1 round 9 interim report: downward trend of SARS-CoV-2 in England in February 2021 but still at high prevalence. medRxiv; 23-02-2021, doi: https://doi.org/10.1101/2021.02.18.21251973
J Elliott, M Whitaker, B Bodinier et al. Symptom reporting in over 1 million people: community detection of COVID-19. medRxiv; 12-02-2021, doi: https://doi.org/10.1101/2021.02.10.21251480
S Riley, O Eales, C Walters et al. REACT-1 round 8 final report: high average prevalence with regional heterogeneity of trends in SARS-CoV-2 infection in the community in England during January 2021. Imperial College London; 28-01-2021, access: http://hdl.handle.net/10044/1/85703
S Riley, H Wang, O Eales et al. REACT-1 round 8 interim report: SARS-CoV-2 prevalence during the initial stages of the third national lockdown in England. Imperial College London; 21-01-2021, access: http://hdl.handle.net/10044/1/85583
S Riley, KEC Ainslie, O Eales et al. REACT-1 round 7 updated report: regional heterogeneity in changes in prevalence of SARS-CoV-2 infection during the second national COVID-19 lockdown in England. Imperial College London; 15-12-2020, doi: https://doi.org10.25561/84879
S Riley, KEC Ainslie, O Eales et al. REACT-1 round 7 interim report: fall in prevalence of swab-positivity in England during national lockdown. Imperial College London; 30-11-2020, access: https://www.imperial.ac.uk/media/imperial-college/institute-of-global-health-innovation/imperial_react1_r7_interim.pdf
S Mishra, J Scott, H Zhu et al. A COVID-19 Model for Local Authorities of the United Kingdom. medRxiv; 27-11-2020, doi: https://doi.org/10.1101/2020.11.24.20236661
D Haw, P Christen, G Forchini et al. DAEDALUS: An economic-epidemiological model to optimize economic activity while containing the SARS-CoV-2 pandemic. Imperial College London; 16-11-2020. doi: https://doi.org/10.25561/83929
S Riley, KEC Ainslie, O Eales et al. REACT-1 round 6 updated report: high prevalence of SARS-CoV-2 swab positivity with reduced rate of growth in England at the start of November 2020. Imperial College London; 12-11-2020, access: http://hdl.handle.net/10044/1/83912
S Riley, KEC Ainslie, O Eales et al. High prevalence of SARS-CoV-2 swab positivity and increasing R number in England during October 2020: REACT-I round 6 interim report. medRxiv; 03-11-2020, doi: https://doi.org/10.1101/2020.10.30.20223123
H Ward, G Cooke, C Atchison et al. Declining prevalence of antibody positivity to SARS-CoV-2: a community study of 365,000 adults. Imperial College London; 27-10-2020, doi: https://doi.org/10.1101/2020.10.26.20219725
S Riley, K Ainslie, O Eales et al. High and increasing prevalence of SARS-CoV-2 swab positivity in England during end September beginning October 2020: REACT-1 round 5 updated report. Imperial College London; 09-10-2020, doi: https://doi.org/10.1101/2020.10.12.20211227
S Riley, KEC Ainslie, O Eales et al. High prevalence of SARS-CoV-2 swab positivity in England during September 2020: interim report of round 5 of REACT-1 study. Imperial College London; 01-10-2020, doi: https://doi.org/10.1101/2020.09.30.20204727
BA Djaafara, C Whittaker, OJ Watson et al. Quantifying the dynamics of COVID-19 burden and impact of interventions in Java, Indonesia. medRxiv; 02-10-2020, doi: https://doi.org/10.1101/2020.10.02.20198663
M Ragonnet-Cronin, O Boyd, L Geidelberg et al. COVID-19 epidemic severity is associated with timing of non-pharmaceutical interventions. medRxiv; 18-09-2020, doi: https://doi.org/10.1101/2020.09.15.20194258
L Geidelberg, O Boyd, D Jorgenson et al. Genomic epidemiology of a densely sampled COVID-19 outbreak in China. medRxiv; 16-09-2020, doi: https://doi.org/10.1101/2020.03.09.20033365
TA Mellan, HH Hoeltgebaum, S Mishra et al. Subnational analysis of the COVID-19 epidemic in Brazil. medRxiv; 24-08-2020, doi: https://doi.org/10.1101/2020.05.09.20096701
H Ward, CJ Atchison, M Whitaker et al. Antibody prevalence for SARS-CoV-2 in England following first peak of the pandemic: REACT2 study in 100,000 adults. medRxiv; 21-08-2020, doi: https://doi.org/10.1101/2020.08.12.20173690
S Riley, KEC Ainslie, O Eales et al. Transient dynamics of SARS-COV-2 as England exited national lockdown. medRxiv; 06-08-2020, doi: https://doi.org/10.1101/2020.08.05.20169078
NTD Modelling Consortium. The potential impact of programmes interruptions due to COVID-19 on 7 neglected tropical diseases: a modelling-based analysis. Gates Open Res; 17-07-2020. doi: https://doi.org/10.21955/gatesopenres.1116665.1
S Riley, KEC Aindsly, O Eales et al. Community prevalence of SARS-CoV-2 virus in England during May 2020: REACT study. medRxiv; 11-07-2020, doi: https://doi.org/10.1101/2020.07.10.20150524
S Mishra, T Berah, TA Mellan et al. On the derivation of the renewal equation from anage-dependent branching process: an epidemic modellingperspective. ArXiv Quantitative Biology - population and evolution; 30-06-2020, arXiv: 2006.16487
S Bhatia, N Imai, G Cuomo-Dannenburg et al. Estimating the number of undetected COVID-19 cases among travellers from mainland China. Wellcome Open Research; 15-06-2020, doi: https://doi.org/10.12688/wellcomeopenres.15805.1
BL Jewell, JA Smith, TB Hallett. The Potential Impact of Interruptions to HIV Services: A Modelling Case Study for South Africa. medRxiv; 27-04-2020, doi: https://doi.org/10.1101/2020.04.22.20075861
N Imai, KAM Gaythorpe, S Abbott et al. Adoption and impact of non-pharmaceutical interventions for COVID-19. Wellcome Open Research; 02-04-2020, 5:59, doi: https://doi.org/10.12688/wellcomeopenres.15808.1
E Volz, H Fu, H Wang et al. Genomic epidemiology of a densely sampled COVID19 outbreak in China. medRxiv; 19-03-2020, doi: https://doi.org/10.1101/2020.03.09.20033365
Online reports
R Johnson, B Djaafara, D Haw et al. Report 51: Valuing lives, education and the economy in an epidemic: Societal benefit of SARS-CoV-2 booster vaccinations in Indonesia. Imperial College London. 14-02-2022. doi: https://doi.org/10.25561/93573
NM Ferguson, A Ghani, W Hinsley et al. Report 50: Hospitalisation risk for Omicron cases in England. Imperial College London. 22-12-2021. doi: https://doi.org/10.25561/93035
NM Ferguson, A Ghani, A Cori et al. Report 49: Growth, population distribution and immune escape of Omicron in England. Imperial College London, 16-12-2021. doi: https://doi.org/10.25561/93038
AB Hogan, SL Wu, P Doohan et al. Report 48: The value of vaccine booster doses to mitigate the global impact of the Omicron SARS-CoV-2 variant. Imperial College London, 16-12-2021. doi: https://doi.org/10.25561/93034
S Bhatia, J Wardle, RK Nash, P Nouvellett, A Cori. Report 47: A generic method and software to estimate the transmission advantage of pathogen variants in real-time : SARS-CoV-2 as a case-study. Imperial College London, 26-11-2021 doi: https://doi.org/10.25561/92689
A Brizzi, C Whittaker, LMS. Servo et al. Report 46: Factors driving extensive spatial and temporal fluctuations in COVID-19 fatality rates in Brazilian hospitals. Imperial College London. 6-10-2021, doi: https://doi.org/10.25561/91875
G Nason and J Wei. Report 45: Quantifying the economic response to Covid-19 mitigations and death rates. Imperial College London. 1-09-2021, https://www.imperial.ac.uk/mrc-global-infectious-disease-analysis/covid-19/report-45-economic-resonse/
S Mishra, S Mindermann, M Sharma, et al. Report 44: Recent trends in SARS-CoV-2 variants of concern in England. Imperial College London. 20-05-2021, doi: https://doi.org/10.25561/88876
D Mesa, A Hogan et al. Report 43: Quantifying the impact of vaccine hesitancy in prolonging the need for Non-Pharmaceutical Interventions to control the COVID-19 pandemic. Imperial College London. 24-03-21, doi: https://doi.org/10.25561/87096
E Volz, S Mishra, M Chand et al. Report 42: Transmission of SARS-CoV-2 Lineage B.1.1.7 in England: insights from linking epidemiological and genetic data. Imperial College London; 31-12-2020, doi: https://doi.org/10.1101/2020.12.30.20249034
ES Knock, LK Whittles, JA Lees et al. Report 41: The 2020 SARS-CoV-2 epidemic in England: key epidemiological drivers and impact of interventions. Imperial College London; 22-12-2020, doi: https://doi.org/10.25561/85146
JC D’Aeth, S Ghosal, F Grimm et al. Report 40: Optimal scheduling rules for elective care to minimize years of life lost during the SARS-CoV-2 pandemic: an application to England. Imperial College London; 10-12-2020, doi: https://doi.org/10.25561/84788
OJ Watson, N Abdelmagid, A Ahmed et al. Report 39: Characterising COVID-19 epidemic dynamics and mortality under-ascertainment in Khartoum, Sudan. Imperial College London; 01-12-2020, doi: https://doi.org/10.25561/84283
HA Thompson, A Mousa, A Dighe et al. Report 38: SARS-CoV-2 setting-specific transmission rates: a systematic review and meta-analysis. Imperial College London; 27-11-2020, doi: https://doi.org/10.25561/84270
KAM Gaythorpe, S Bhatia, T Mangal et al. Report 37: Children’s role in the COVID-19 pandemic: as systematic review of susceptibility, severity, and transmissibility. Imperial College London; 25-11-2020, doi: https://doi.org/10.25561/84220
R McCabe, MD Kont, N Schmit et al. Report 36: Modelling ICU capacity under different epidemiological scenarios of the COVID-19 pandemic in three western European countries. Imperial College London; 16-11-2020, doi: https://doi.org/10.25561/84003
D Haw, G Forchini, P Christen et al. Report 35: COVID-19 How can we keep schools and universities open? Differentiating closures by economic sector to optimize social and economic activity while containing SARS-CoV-2 transmission. Imperial College London; 16-11-2020, doi: https://doi.org/10.25561/83928
NF Brazeau, R Verity, S Jenks et al. Report 34: COVID-19 Infection Fatality Ratio Estimates from Seroprevalence. Imperial College London; 29-10-2020, doi: https://doi.org/10.25561/83545
AB Hogan, P Winskill, OJ Watson et al. Report 33: Modelling the allocation and impact of a COVID-19 vaccine. Imperial College London; 25-09-2020, doi: https://doi.org/10.25561/82822
M Monod, A Blenkinsop, X Xi et al. Report 32: Age groups that sustain resurging COVID-19 epidemics in the United States. Imperial College London; 17-09-2020, doi: https://doi.org/10.25561/82551
OJ Watson, M Alhaffar, Z Mehchy et al. Report 31: Estimating under-ascertainment of COVID-19 mortality: an analysis of novel data sources to provide insight into COVID-19 dynamics in Damascus, Syria. Imperial College London; 15-09-2020, doi: https://doi.org/10.25561/82443
H Fu, X Xi, H Wang et al. Report 30: The COVID-19 epidemic trends and control measures in mainland China. Imperial College London; 03-07-2020, doi: https://doi.org/10.25561/80360
MAC Vollmer, S Radhakrishnan, MD Kont et al. Report 29: The impact of the COVID-19 epidemic on all-cause attendances to emergency departments in two large London hospitals: an observational study. Imperial College London; 01-07-2020, doi: https://doi.org/10.25561/80295
G Forchini, A Lochen, T Hallett et al. Report 28: Excess non-COVID-19 deaths in England and Wales between 29th February and 5th June 2020. Imperial College London; 18-06-2020, doi: https://doi.org/10.25561/79984
R McCabe, N Schmit, P Christen et al. Report 27: Adapting hospital capacity to meet changing demands during the COVID-19 pandemic. Imperial College London; 15-06-2020, doi: https://doi.org/10.25561/79837
P. Nouvellet, S Bhatia, A Cori et al. Report 26: Reduction in mobility and COVID-19 transmission. Imperial College London; 08-06-2020, doi: https://doi.org/10.25561/79643
A Dighe, L Cattarino, G Cuomo-Dannenburg et al. Report 25: Response to COVID-19 in South Korea and implications for lifting stringent interventions. Imperial College London; 29-05-2020, doi: https://doi.org/10.25561/79388
B Jeffrey, CE Walters, KE Ainslie et al. Report 24: Anonymised & aggregated crowd level mobility data from mobile phones suggests initial compliance with COVID19 social distancing interventions was high & geographically consistent across UK. Imperial College London; 29-05-2020, doi: https://doi.org/10.25561/79387
HJT Unwin, S Mishra, VC Bradley et al. Report 23: State-level tracking of COVID-19 in the United States. Imperial College London; 21-05-2020, doi: https://doi.org/10.25561/79231
P Winskill, C Whittaker, P Walker et al. Report 22: Equity in response to the COVID-19 pandemic: an assessment of the direct and indirect impacts on disadvantaged and vulnerable populations in low- and lower middle-income countries. Imperial College London; 12-05-2020, doi: https://doi.org/10.25561/78965
TA Mellan, HH Hoeltgebaum, S Mishra et al. Report 21: Estimating COVID-19 cases and reproduction number in Brazil. Imperial College London; 08-05-2020, doi: https://doi.org/10.25561/78872
MAC Vollmer, S Mishra, HJT Unwin et al. Report 20: Using mobility to estimate the transmission intensity of COVID-19 in Italy: A subnational analysis with future scenarios. Imperial College London; 04-05-2020, doi: https://doi.org/10.25561/78677
AR hogan, B Jewell, E Sherrard-Smith et al. Report 19: The Potential Impact of the COVID-19 Epidemic on HIV, TB and Malaria in Low- and Middle-Income Countries. Imperial College London; 01-05-2020, doi: https://doi.org/10.25561/78670
E Sherrard-Smith, AB Hogan, A Hamlet et al. Report 18: The potential public health impact of COVID-19 on malaria in Africa. Imperial College London;01-05-2020, doi: https://doi.org/10.25561/78668.
PN Perez-Guzman, A Daunt, S Mukherjee et al. Report 17: Clinical characteristics and predictors of outcomes of hospitalised patients with COVID-19 in a London NHS Trust: a retrospective cohort study. Imperial College London; 29-04-2020, doi: https://doi.org/10.25561/78613.
NC Grassly, M Pons-Salort, EPK Parker, PJ White et al. Report 16: Role of testing in COIVD-19 control. Imperial College London; 23-04-2020. doi: https://doi.org/10.25561/78439.
P Christen, J C D’Aeth, A Løchen et al. Report 15: Strengthening hospital capacity for the COVID-19 pandemic. Imperial College London; 17-04-2020. doi: https://doi.org/10.25561/78033.
P Pristerà, V Papageorgiou, M Kaur et al. Report 14: Online Community Involvement in COVID-19 Research & Outbreak Response: Early Insights from a UK Perspective. Imperial College London; 03-04-2020. doi: https://doi.org/10.25561/77842.
S Flaxman, S Mishra, A Gandy et al. Report 13: Estimating the number of infections and the impact of non-pharmaceutical interventions on COVID-19 in 11 European countries. Imperial College London; 30-03-2020. doi: https://doi.org/10.25561/77731.
PGT Walker, C Whittaker, O Watson et al. Report 12: The Global Impact of COVID-19 and Strategies for Mitigation and Suppression. Imperial College London; 26-03-2020 doi: https://doi.org/10.25561/77735.
KEC Ainslie, C Walters, H Fu et al. Report 11: Evidence of initial success for China exiting COVID-19 social distancing policy after achieving containment. Imperial College London; 24-03-2020. doi: https://doi.org/10.25561/77646.
C Atchison, L Bowman, JW Eaton et al. Report 10: Public Response to UK Government Recommendations on COVID-19: Population Survey, 17-18 March 2020. Imperial College London; 20-03-2020. doi: https://doi.org/10.25561/77581.
NM Ferguson, D Laydon, G Nedjati-Gilani et al. Report 9: Impact of non-pharmaceutical interventions (NPIs) to reduce COVID-19 mortality and healthcare demand. Imperial College London; 16-03-2020. doi: https://doi.org/10.25561/77482.
K Gaythorpe, N Imai, G Cuomo-Dannenburg et al. Report 8: Symptom progression of COVID-19. Imperial College London; 11-03-2020. doi: https://doi.org/10.25561/77344.
H Thompson, N Imai, Amy Dighe et al. Report 7: Estimating infection prevalence in Wuhan City from repatriation flights. Imperial College London; 09-03-2020. doi: https://doi.org/10.25561/77295.
S Bhatia, N Imai, G Cuomo-Dannenburg et al. Report 6: Relative sensitivity of international surveillance. Imperial College London; 21-02-2020. doi: https://doi.org/10.25561/77168.
E Volz, M Baguelin, S Bhatia et al. Report 5: Phylogenetic analysis of SARS-CoV-2. Imperial College London; 15-02-2020. doi: https://doi.org/10.25561/77169.
I Dorigatti, L Okell, A Cori et al. Report 4: Severity of 2019-novel coronavirus (nCoV). Imperial College London; 10-02-2020. doi: https://doi.org/10.25561/77154.
N Imai, A Cori, I Dorigatti, M Baguelin, CA Donnelly, S Riley, NM Ferguson. Report 3: Transmissibility of 2019-nCoV. Imperial College London; 25-01-2020. doi: https://doi.org/10.25561/77148.
N Imai, I Dorigatti, A Cori, CA Donnelly, S Riley, NM Ferguson. Report 2: Estimating the potential total number of novel Coronavirus cases in Wuhan City, China. Imperial College London; 22-01-2020. doi: https://doi.org/10.25561/77150.
N Imai, I Dorigatti, A Cori, S Riley, NM Ferguson. Report 1: Estimating the potential total number of novel Coronavirus cases in Wuhan City, China. Imperial College London; 17-01-2020. doi: https://doi.org/10.25561/77149.
Planning tools
COVID-19 Austria. Imperial College London. https://www.covid19model.at/
COVID-19 elective care optimal scheduling tool. Imperial College London. https://github.com/ImperialCollegeLondon/OptimalScheduling4COVID
COVID-19 LMIC Reports. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://mrc-ide.github.io/global-lmic-reports/
COVID-19 NAT-RDT. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://covid-ag-rdt.shinyapps.io/model/
COVID-19 Orphanhood Trends. MRC Centre for Global Infectious Disease Analysis, Imperial College london. https://imperialcollegelondon.github.io/orphanhood_trends
COVID-19 Orphanhood Calculator. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://imperialcollegelondon.github.io/orphanhood_calculator/
COVID-19 Orphanhood Calculator US. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://imperialcollegelondon.github.io/orphanhood_USA/
COVID-19 Scenario Analysis Tool. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://www.covidsim.org/
COVID-19 UK. Imperial College London. doi: 10.5281/zenodo.4330647. https://imperialcollegelondon.github.io/covid19local/#details
covid19model USA. Imperial College London. https://mrc-ide.github.io/covid19usa/#/
covid19model Europe. Imperial College London. https://mrc-ide.github.io/covid19estimates/#/
J-IDEA COVID-19 excess deaths tracker for England and Wales. MRC Centre for Global Infectious Disease Analysis, Jameel Institute (J-IDEA), Imperial College London. https://j-idea.github.io/ONSdeaths/
J-IDEA Pandemic Hospital Planner. MRC Centre for Global Infectious Disease Analysis, Jameel Institute (J-IDEA), Imperial College London. https://www.imperial.ac.uk/media/imperial-college/medicine/mrc-gida/2020-04-17-COVID19-Report-15-hospital-planner.xlsm
MRIIDS. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://mriids.org
Short term forecasts of COVID-19 deaths in multiple countries. MRC Centre for Global Infectious Disease Analysis, Jameel Institute (J-IDEA), Imperial College London. https://mrc-ide.github.io/covid19-short-term-forecasts/index.html#content
TB service disruption simulator. World Health Organization South East Asia Regional Office (SEARO). https://beta.avstaging.org/tbcovidapp/
Software packages
CovidSim. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/covid-sim
Eigen1. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/eigen1
epidemia. Imperial College London. https://github.com/ImperialCollegeLondon/epidemia
EpiEstim. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/EpiEstim
markovid. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/markovid
orderly. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/vimc/orderly
PhyDyn. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/PhyDyn
sircovid. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/sircovid
squire. MRC Centre for Global Infectious Disease Analysis,Imperial College London. https://github.com/mrc-ide/squire
nimue. MRC Centre for Global Infectious Disease Analysis, Imperial College London. https://github.com/mrc-ide/nimue