Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England

The Elements of Statistical Learning

Hastie, T., Tibshirani, R., & Friedman, J. (2009) · Springer Series in Statistics · doi:10.1007/978-0-387-84858-7 · Cited by 25,970

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

Minh, B. Q., Schmidt, H. A., Chernomor, O., Schrempf, D., Woodhams, M. D., von Haeseler, A., & Lanfear, R. (2020) · Molecular Biology and Evolution · doi:10.1093/molbev/msaa015 · Cited by 16,873

Generalized Additive Models

Hastie, T., & Tibshirani, R. (1986) · Statistical Science · doi:10.1214/ss/1177013604 · Cited by 12,575

Posterior summarization in Bayesian phylogenetics using tracer 1.7

Rambaut, A., Drummond, A. J., Xie, D., Baele, G., & Suchard, M. A. (2018) · Systematic Biology · doi:10.1093/sysbio/syy032 · Cited by 11,159

Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10

Suchard, M. A., Lemey, P., Baele, G., Ayres, D. L., Drummond, A. J., & Rambaut, A. (2018) · Virus Evolution · doi:10.1093/ve/vey016 · Cited by 3,749

Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe

Flaxman, S. R., Mishra, S., Gandy, A., Unwin, H. J. T., Mellan, T. A., Coupland, H., Whittaker, C., Zhu, H., Berah, T., Eaton, J. W., et al. (2020) · Nature · doi:10.1038/s41586-020-2405-7 · Cited by 3,398

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

Davies, N. G., Abbott, S., Barnard, R. C., Jarvis, C. I., Kucharski, A. J., Munday, J. D., Pearson, C. A. B., Russell, T. W., Tully, D. C., Washburne, A. D., et al. (2021) · Science · doi:10.1126/science.abg3055 · Cited by 2,581

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

Davies, N. G., Abbott, S., Barnard, R. C., Jarvis, C. I., Kucharski, A. J., Munday, J. D., Pearson, C. A. B., Russell, T. W., Tully, D. C., Washburne, A. D., et al. (2020) · doi:10.1101/2020.12.24.20248822 · Cited by 2,557

Detection of a SARS-CoV-2 variant of concern in South Africa

Tegally, H., Wilkinson, E., Giovanetti, M., Iranzadeh, A., Fonseca, V., Giandhari, J., Doolabh, D., Pillay, S., San, E. J., Msomi, N., et al. (2021) · Nature · doi:10.1038/s41586-021-03402-9 · Cited by 2,510

Epidemiology and transmission of COVID-19 in 391 cases and 1286 of their close contacts in Shenzhen, China: a retrospective cohort study

Bi, Q., Wu, Y., Mei, S., Ye, C., Zou, X., Zhang, Z., Liu, X., Wei, L., Truelove, S., Zhang, T., et al. (2020) · The Lancet Infectious Diseases · doi:10.1016/s1473-3099(20)30287-5 · Cited by 1,960

The Welfare Cost of Vaccine Misallocation, Delays and Nationalism

Gollier, C. (2021) · Journal of Benefit-Cost Analysis · doi:10.1017/bca.2021.4 · Cited by 20

A phylogeny-based metric for estimating changes in transmissibility from recurrent mutations in SARS-CoV-2Preprint

Richard, D., Shaw, L. P., Lanfear, R., Corbett-Detig, R. B., Hinrichs, A. S., McBroome, J., Turakhia, Y., Acman, M., Owen, C. J., Tan, C. C. S., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.05.06.442903 · Cited by 20

The unique evolutionary dynamics of the SARS-CoV-2 Delta variantPreprint

Stern, A., Fleishon, S., Kustin, T., Dotan, E., Mandelboim, M., Erster, O., Mendelson, E., Mor, O., & Zuckerman, N. S. (2021) · medRxiv · doi:10.1101/2021.08.05.21261642 · Cited by 23

The mobility gap: estimating mobility thresholds required to control SARS-CoV-2 in Canada

Brown, K. A., Soucy, J.-P. R., Buchan, S. A., Sturrock, S. L., Berry, I., Stall, N. M., Jüni, P., Ghasemi, A., Gibb, N., MacFadden, D. R., et al. (2021) · Canadian Medical Association Journal · doi:10.1503/cmaj.210132 · Cited by 18

Using syndromic measures of mortality to capture the dynamics of COVID-19 in Java, Indonesia, in the context of vaccination rollout

Djaafara, B. A., Whittaker, C., Watson, O. J., Verity, R., Brazeau, N. F., WİDYASTUTİ, W., Oktavia, D., Adrian, V., Salama, N., Bhatia, S., et al. (2021) · BMC Medicine · doi:10.1186/s12916-021-02016-2 · Cited by 20

SARS-CoV-2 infection in UK university students: lessons from September–December 2020 and modelling insights for future student return

Enright, J. A., Hill, E. M., Stage, H. B., Bolton, K. J., Nixon, E. J., Fairbanks, E. L., Tang, M. L., Brooks‐Pollock, E., Dyson, L., Budd, C. J., et al. (2021) · Royal Society Open Science · doi:10.1098/rsos.210310 · Cited by 18

COVID-19 Infection in Children, Infants and Pregnant Subjects: An Overview of Recent Insights and Therapies

Malcangi, G., Inchingolo, A. D., Inchingolo, A. M., Santacroce, L., Marinelli, G., Mancini, A., Vimercati, L., Maggiore, M. E., D’Oria, M. T., Hazballa, D., et al. (2021) · Microorganisms · doi:10.3390/microorganisms9091964 · Cited by 31

Structural Basis of a Human Neutralizing Antibody Specific to the SARS-CoV-2 Spike Protein Receptor-Binding Domain

Yang, M., Li, J., Huang, Z., Li, H., Wang, Y., Wang, X., Kang, S., Huang, X., Wu, C., Liu, T., et al. (2021) · Microbiology Spectrum · doi:10.1128/spectrum.01352-21 · Cited by 19

Reinfections in COVID-19 Patients: Impact of Virus Genetic Variability and Host Immunity

Fakhroo, A. D., Al-Khatib, H. A., Thani, A. A. A., & Yassine, H. M. (2021) · Vaccines · doi:10.3390/vaccines9101168 · Cited by 21

Routine molecular point-of-care testing for SARS-CoV-2 reduces hospital-acquired COVID-19

Livingstone, R., Lin, H., Brendish, N. J., Poole, S., Tanner, A. R., Borca, F., Smith, T. R., Stammers, M., & Clark, T. W. (2022) · Journal of Infection · doi:10.1016/j.jinf.2022.01.034 · Cited by 19

SARS-CoV-2 receptor binding domain fusion protein efficiently neutralizes virus infection

Chaouat, A. E., Achdout, H., Kol, I., Berhani, O., Roi, G., Vitner, E. B., Melamed, S., Politi, B., Zahavy, E., Brizić, I., et al. (2021) · PLoS Pathogens · doi:10.1371/journal.ppat.1010175 · Cited by 20

Delay-differential SEIR modeling for improved modelling of infection dynamics

Kiselev, I. N., Akberdin, I. R., & Kolpakov, F. (2023) · Scientific Reports · doi:10.1038/s41598-023-40008-9 · Cited by 33

Inference of epidemic dynamics in the COVID-19 era and beyond

Cori, A., & Kucharski, A. J. (2024) · Epidemics · doi:10.1016/j.epidem.2024.100784 · Cited by 18

Predicting pathogen mutual invasibility and co-circulation

Park, S. W., Cobey, S. E., Metcalf, C. J. E., Levine, J. M., & Grenfell, B. T. (2024) · Science · doi:10.1126/science.adq0072 · Cited by 19

Deep Mutational Scanning of Viral Glycoproteins and Their Host Receptors

Narayanan, K. K., & Procko, E. (2021) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2021.636660 · Cited by 18

A rapid and low-cost protocol for the detection of B.1.1.7 lineage of SARS-CoV-2 by using SYBR Green-based RT-qPCR

Abdel‐Sater, F., Younes, M., Nassar, H., Nguewa, P., & Hamze, K. (2021) · Molecular Biology Reports · doi:10.1007/s11033-021-06717-y · Cited by 19

SARS-CoV-2 and Coronavirus Disease Mitigation: Treatment Options, Vaccinations and Variants

Khamees, A., Bani-Issa, J., Zoubi, M. S. A., Qasem, T., Alarjah, M. I. A., Alawadin, S. A., Al‐Shami, K., Hussein, F. H., Hussein, E. I., Bashayreh, I. H., et al. (2022) · Pathogens · doi:10.3390/pathogens11020275 · Cited by 19

Epidemiological characteristics of the B.1.526 SARS-CoV-2 variant

Yang, W., Greene, S. K., Peterson, E. R., Li, W., Mathes, R. W., Graf, L. E., Lall, R., Hughes, S., Wang, J., & Fine, A. D. (2022) · Science Advances · doi:10.1126/sciadv.abm0300 · Cited by 18

A quantitative evaluation of aerosol generation during supraglottic airway insertion and removal

Shrimpton, A. J., Brown, J., Cook, T. M., & Pickering, A. E. (2021) · Anaesthesia · doi:10.1111/anae.15572 · Cited by 18

Model design for nonparametric phylodynamic inference and applications to pathogen surveillance

Didelot, X., Franceschi, V. B., Frost, S. D. W., Dennis, A. M., & Volz, E. (2023) · Virus Evolution · doi:10.1093/ve/vead028 · Cited by 18

COVID-19: Mechanistic Model of the African Paradox Supports the Central Role of the NF-κB Pathway

Kircheis, R., Schuster, M., & Planz, O. (2021) · Viruses · doi:10.3390/v13091887 · Cited by 18

SARS-CoV-2 variants of concern are associated with lower RT-PCR amplification cycles between January and March 2021 in France

Roquebert, B., Haïm‐Boukobza, S., Trombert‐Paolantoni, S., Lecorché, E., Verdurme, L., Foulongne, V., Burrel, S., Alizon, S., & Sofonea, M. T. (2021) · International Journal of Infectious Diseases · doi:10.1016/j.ijid.2021.09.076 · Cited by 20

Convergent Evolution of Multiple Mutations Improves the Viral Fitness of SARS-CoV-2 Variants by Balancing Positive and Negative Selection

Upadhyay, V., Patrick, C., Lucas, A., & Mallela, K. M. G. (2022) · Biochemistry · doi:10.1021/acs.biochem.2c00132 · Cited by 17

Defining the determinants of protection against SARS-CoV-2 infection and viral control in a dose-down Ad26.CoV2.S vaccine study in nonhuman primates

Zhu, D. Y., Gorman, M. J., Yuan, D., Yu, J., Mercado, N. B., McMahan, K., Borducchi, E. N., Lifton, M. A., Liu, J., Nampanya, F., et al. (2022) · PLoS Biology · doi:10.1371/journal.pbio.3001609 · Cited by 18

A comparison of high-throughput SARS-CoV-2 sequencing methods from nasopharyngeal samples

Gerber, Z., Daviaud, C., Delafoy, D., Sandron, F., Alidjinou, E. K., Mercier, J., Gerber, S., Meyer, V., Boland, A., Bocket, L., et al. (2022) · Scientific Reports · doi:10.1038/s41598-022-16549-w · Cited by 21

Acquisition of Furin Cleavage Site and Further SARS-CoV-2 Evolution Change the Mechanisms of Viral Entry, Infection Spread, and Cell Signaling

Frolova, E. I., Palchevska, O., Lukash, T., Domínguez, F. D. B. P., Britt, W. J., & Frolov, I. V. (2022) · Journal of Virology · doi:10.1128/jvi.00753-22 · Cited by 19

Whole genome sequencing analysis of SARS-CoV-2 from Malaysia: From alpha to Omicron

Yu, C. Y., Wong, S. Y., Liew, N. W. C., Joseph, N. M. S., Zakaria, Z., Isa, N. M., Soe, H. J., Kairon, R., Nordin, S. A., & Chee, H. (2022) · Frontiers in Medicine · doi:10.3389/fmed.2022.1001022 · Cited by 19

Structural and computational design of a SARS-CoV-2 spike antigen with improved expression and immunogenicity

Williams, J. A., Biancucci, M., Lessen, L. N., Tian, S., Balsaraf, A., Chen, L., Chesterman, C. C., Maruggi, G., Vandepaer, S., Huang, Y., et al. (2023) · Science Advances · doi:10.1126/sciadv.adg0330 · Cited by 18

Antibody targeting of conserved sites of vulnerability on the SARS-CoV-2 spike receptor-binding domain

Sankhala, R. S., Dussupt, V., Chen, W., Bai, H., Martinez, E. J., Jensen, J. L., Rees, P. A., Hajduczki, A., Chang, W. C., Choe, M., et al. (2023) · Structure · doi:10.1016/j.str.2023.11.015 · Cited by 17

Embedding risk monitoring in infectious disease surveillance for timely and effective outbreak prevention and control

Ingelbeen, B., van Kleef, E., Kingebeni, P. M., Danis, K., Macicame, I., Hens, N., Cleynen, E., & van der Sande, M. A. B. (2025) · BMJ Global Health · doi:10.1136/bmjgh-2024-016870 · Cited by 18

The impact of public health interventions in the Nordic countries during the first year of SARS-CoV-2 transmission and evolution

Duchêne, S., Featherstone, L. A., de Blasio, B. F., Holmes, E. C., Bohlin, J., & Pettersson, J. H. ‐. (2021) · Eurosurveillance · doi:10.2807/1560-7917.es.2021.26.44.2001996 · Cited by 18

Persistence of clinically relevant levels of SARS-CoV2 envelope gene subgenomic RNAs in non-immunocompromised individuals

Davies, M., Bramwell, L. R., Jeffery, N. M., Bunce, B., Lee, B. P., Knight, B., Auckland, C., Masoli, J. A. H., & Harries, L. W. (2021) · International Journal of Infectious Diseases · doi:10.1016/j.ijid.2021.12.312 · Cited by 16

An update on host immunity correlates and prospects of re-infection in COVID-19

Negi, N., Maurya, S. P., Singh, R., & Das, B. K. (2021) · International Reviews of Immunology · doi:10.1080/08830185.2021.2019727 · Cited by 20

Synthesis and In Vitro Study of Antiviral Activity of Glycyrrhizin Nicotinate Derivatives against HIV-1 Pseudoviruses and SARS-CoV-2 Viruses

Fomenko, V., Rudometova, N., Yarovaya, O., Rogachev, A., Fando, A. A., Zaykovskaya, A. V., Komarova, N., Shcherbakov, D., Pyankov, O., Pokrovsky, A., et al. (2022) · Molecules · doi:10.3390/molecules27010295 · Cited by 18

RBD-mRNA vaccine induces broadly neutralizing antibodies against Omicron and multiple other variants and protects mice from SARS-CoV-2 challenge

Shi, J., Zheng, J. H., Zhang, X., Tai, W., Odle, A. E., Perlman, S. M., & Du, L. (2022) · Translational research · doi:10.1016/j.trsl.2022.04.007 · Cited by 18

Assessment of mortality and hospital admissions associated with confirmed infection with SARS-CoV-2 Alpha variant: a matched cohort and time-to-event analysis, England, October to December 2020

Dabrera, G., Allen, H., Zaidi, A., Flannagan, J., Twohig, K. A., Thelwall, S., Marchant, E., Aziz, N. I. B. A., Lamagni, T. L., Myers, R. E., et al. (2022) · Eurosurveillance · doi:10.2807/1560-7917.es.2022.27.20.2100377 · Cited by 18

Temporal lineage replacements and dominance of imported variants of concern during the COVID-19 pandemic in Kenya

Kimita, G., Nyataya, J., Omuseni, E., Sigei, F., Lemtudo, A. P., Muthanje, E. M., Andika, B., Liyai, R., Githii, R., Masakhwe, C., et al. (2022) · Communications Medicine · doi:10.1038/s43856-022-00167-8 · Cited by 15

The SARS-CoV-2 Alpha variant was associated with increased clinical severity of COVID-19 in Scotland: A genomics-based retrospective cohort analysis

Pascall, D. J., Vink, E., Blacow, R., Bulteel, N., Campbell, A., Campbell, R., Clifford, S., Davis, C., Filipe, A. D. S., Sakka, N. E., et al. (2023) · PLoS ONE · doi:10.1371/journal.pone.0284187 · Cited by 18

Short-term Projections based on Early Omicron Variant Dynamics in EnglandPreprint

Keeling, M. J., Brooks‐Pollock, E., Challen, R., Danon, L., Dyson, L., Gog, J. R., Guzman-Rincon, L. M., Hill, E. M., Pellis, L., Read, J. M., et al. (2021) · medRxiv · doi:10.1101/2021.12.30.21268307 · Cited by 19

Structural Analysis of the Novel Variants of SARS-CoV-2 and Forecasting in North America

Quinonez, E., Vahed, M., Shahraki, A. H., & Mirsaeidi, M. S. (2021) · Viruses · doi:10.3390/v13050930 · Cited by 16

Global variation in sequencing impedes SARS-CoV-2 surveillance

Crawford, D. C., & Williams, S. M. (2021) · PLoS Genetics · doi:10.1371/journal.pgen.1009620 · Cited by 17

COVID-19 transmission and the safety of air travel during the pandemic: a scoping review

Khatib, A. N., McGuinness, S. L., & Wilder‐Smith, A. (2021) · Current Opinion in Infectious Diseases · doi:10.1097/qco.0000000000000771 · Cited by 17

Early warning and rapid public health response to prevent COVID-19 outbreaks in long-term care facilities (LTCF) by monitoring SARS-CoV-2 RNA in LTCF site-specific sewage samples and assessment of antibodies response in this population: prospective study protocol

Lee, B. E., Sikora, C. A., Faulder, D., Risling, E., Little, L. A., Qiu, Y., Gao, T., Bulat, R., Craik, S. A., Hrudey, S. E., et al. (2021) · BMJ Open · doi:10.1136/bmjopen-2021-052282 · Cited by 17

Evaluation of the clinical and analytical performance of the Seegene allplex™ SARS-CoV-2 variants I assay for the detection of variants of concern (VOC) and variants of interests (VOI)

Caza, M., Hogan, C. A., Jassem, A. N., Prystajecky, N., Hadzic, A., & Wilmer, A. (2021) · Journal of Clinical Virology · doi:10.1016/j.jcv.2021.104996 · Cited by 17

Replacement of the Alpha variant of SARS-CoV-2 by the Delta variant in Lebanon between April and June 2021

Merhi, G., Trotter, A. J., Martins, L. D. O., Koweyes, J., Le-Viet, T., Naja, H. A. E., Albuaini, M., Prosolek, S. J., Alikhan, N.-F., Lott, M. C., et al. (2022) · Microbial Genomics · doi:10.1099/mgen.0.000838 · Cited by 15

Tracking the turnover of SARS-CoV-2 VOCs Gamma to Delta in a Brazilian state (Minas Gerais) with a high-vaccination status

Fonseca, P. L. C., Moreira, F. R. R., de Souza, R. M., Guimarães, N. R., Carvalho, N. D. O., Adelino, T., Alves, H. J., Alvim, L. B., Cândido, D. D. S., Coelho, H. P., et al. (2022) · Virus Evolution · doi:10.1093/ve/veac064 · Cited by 16

State-of-art high-performance Nano-systems for mutated coronavirus infection management: From Lab to Clinic

Bhattacharjee, R., Dubey, A. K., Ganguly, A., Bhattacharya, B., Mishra, Y. K., Mostafavi, E., & Kaushik, A. K. (2022) · OpenNano · doi:10.1016/j.onano.2022.100078 · Cited by 17

A RT-qPCR system using a degenerate probe for specific identification and differentiation of SARS-CoV-2 Omicron (B.1.1.529) variants of concern

Jessen, R., Nielsen, L., Larsen, N. B., Cohen, A. S., Gunalan, V., Marving, E. L., Alfaro‐Núñez, A., Polacek, C., Fomsgaard, A., & Spieß, K. (2022) · PLoS ONE · doi:10.1371/journal.pone.0274889 · Cited by 17

Two Years of Genomic Surveillance in Belgium during the SARS-CoV-2 Pandemic to Attain Country-Wide Coverage and Monitor the Introduction and Spread of Emerging Variants

Cuypers, L., Dellicour, S., Hong, S. L., Potter, B. I., Verhasselt, B., Vereecke, N., Lambrechts, L., Durkin, K., Bours, V., Klamer, S., et al. (2022) · Viruses · doi:10.3390/v14102301 · Cited by 17

Characterization and Function of Glycans on the Spike Proteins of SARS-CoV-2 Variants of Concern

Zheng, L., Wang, K., Chen, M., Qin, F., Yan, C., & Zhang, X. (2022) · Microbiology Spectrum · doi:10.1128/spectrum.03120-22 · Cited by 17

Baseline Sequencing Surveillance of Public Clinical Testing, Hospitals, and Community Wastewater Reveals Rapid Emergence of SARS-CoV-2 Omicron Variant of Concern in Arizona, USA

Smith, M. F., Holland, S. C., Lee, M. B., Hu, J. C., Pham, N. C., Sullins, R. A., Holland, L. A., Mu, T., Thomas, A. W., Fitch, R., et al. (2023) · mBio · doi:10.1128/mbio.03101-22 · Cited by 17

Rapid Detection of Intact SARS-CoV-2 Using Designer DNA Nets and a Pocket-Size Smartphone-Linked Fluorimeter

Lee, H., Wang, W., Chauhan, N., Xiong, Y., Magazine, N., Valdescruz, O., Kim, D. Y., Qiu, T., Huang, W., Wang, X., et al. (2022) · Biosensors and Bioelectronics · doi:10.1016/j.bios.2023.115228 · Cited by 18

Phytochemicals of Withania somnifera as a Future Promising Drug against SARS-CoV-2: Pharmacological Role, Molecular Mechanism, Molecular Docking Evaluation, and Efficient Delivery

Ramli, S., Wu, Y. S., Batumalaie, K., Guad, R. M., Choy, K. W., Kumar, A., Gopinath, S. C. B., Sarker, M. M. R., Subramaniyan, V., Sekar, M., et al. (2023) · Microorganisms · doi:10.3390/microorganisms11041000 · Cited by 16

COVID-19 mutations: An overview

Sarkar, M. S., & Madabhavi, I. (2024) · World Journal of Methodology · doi:10.5662/wjm.v14.i3.89761 · Cited by 22

A comprehensive review and update on severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and Coronavirus disease 2019 (COVID-19): what do we know now in 2021?

Ramphul, K., Ramphul, Y., Park, Y., Lohana, P. J. D., Dhillon, B. K., & Sombans, S. (2021) · Archives of Medical Science - Atherosclerotic Diseases · doi:10.5114/amsad.2021.105065 · Cited by 17

Evaluating the effectiveness of control measures in multiple regions during the early phase of the COVID-19 pandemic in 2020

Wang, Z., Whittington, J. D., Yuan, H., Miao, H., Tian, H., & Stenseth, N. C. (2021) · Biosafety and Health · doi:10.1016/j.bsheal.2021.09.002 · Cited by 16

Tracking SARS-CoV-2 variants by entire S-gene analysis using long-range RT-PCR and Sanger sequencing

Matsubara, M., Imaizumi, Y., Fujikawa, T., Ishige, T., Nishimura, M., Miyabe, A., Murata, S., Kawasaki, K., Taniguchi, T., Igari, H., et al. (2022) · Clinica Chimica Acta · doi:10.1016/j.cca.2022.03.014 · Cited by 17

Selection for infectivity profiles in slow and fast epidemics, and the rise of SARS-CoV-2 variants

Blanquart, F., Hozé, N., Cowling, B. J., Débarre, F., & Cauchemez, S. (2022) · eLife · doi:10.7554/elife.75791 · Cited by 15

Immunisation, asymptomatic infection, herd immunity and the new variants of COVID 19Preprint

Grant, A., & Hunter, P. R. (2021) · medRxiv · doi:10.1101/2021.01.16.21249946 · Cited by 18

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 2021Preprint

Riley, S., Eales, O. D., Walters, C. E., Wang, H., Ainslie, K. E. C., Atchison, C. J., Fronterrè, C., Diggle, P. J., Ashby, D., Donnelly, C. A., et al. (2021) · medRxiv · doi:10.1101/2021.01.28.21250606 · Cited by 17

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Berkane, S., Harizi, I., & Tayebi, A. (2021) · medRxiv · doi:10.1101/2021.02.05.21250572 · Cited by 18

Monitoring the propagation of SARS CoV2 variants by tracking identified mutation in wastewater using specific RT-qPCRPreprint

Wurtzer, S., Waldman, P., Levert, M., Mouchel, J., Gorgé, O., Boni, M., Maday, Y., Maréchal, V., & Moulin, L. (2021) · medRxiv · doi:10.1101/2021.03.10.21253291 · Cited by 16

S:D614G and S:H655Y are Gateway Mutations that Act Epistatically to Promote SARS-CoV-2 Variant FitnessPreprint

Yurkovetskiy, L., Egri, S. B., Kurhade, C., Díaz-Salinas, M. A., Jaimes, J. A., Nyalile, T., Xie, X., Choudhary, M. C., Dauphin, A., Li, J. Z., et al. (2023) · SSRN Electronic Journal · doi:10.1101/2023.03.30.535005 · Cited by 18

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Fontanet, A. L., Grant, R., Greve‐Isdahl, M., & Sridhar, D. (2021) · BMJ · doi:10.1136/bmj.n524 · Cited by 16

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Wiedenmann, M., Goutaki, M., Keiser, O., Stringhini, S., Tanner, M., & Low, N. N. (2021) · Swiss Medical Weekly · doi:10.4414/smw.2021.w30058 · Cited by 15

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Nidom, R. V., Indrasari, S., Normalina, I., Nidom, A. N., Afifah, B., Dewi, L., Putra, A. K., Ansori, A. N. M., Kusala, M. K. J., Alamudi, M. Y., et al. (2021) · Bulletin of the National Research Centre/Bulletin of the National Research Center · doi:10.1186/s42269-021-00657-0 · Cited by 28

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Zhao, L. P., Lybrand, T. P., Gilbert, P. B., Hawn, T. R., Schiffer, J. T., Stamatatos, L., Payne, T. H., Carpp, L. N., Geraghty, D. E., & Jerome, K. R. (2021) · Viruses · doi:10.3390/v14010009 · Cited by 15

Repurposing of Drugs for SARS-CoV-2 Using Inverse Docking Fingerprints

Jukič, M., Kores, K., Janežič, D., & Bren, U. (2021) · Frontiers in Chemistry · doi:10.3389/fchem.2021.757826 · Cited by 18

Hybrid immunity against COVID-19 in different countries with a special emphasis on the Indian scenario during the Omicron period

Bhattacharya, M., Sharma, A. R., Dhama, K., Agoramoorthy, G., & Chakraborty, C. (2022) · International Immunopharmacology · doi:10.1016/j.intimp.2022.108766 · Cited by 17

SARS-CoV-2 Variants Associated with Vaccine Breakthrough in the Delaware Valley through Summer 2021

Marques, A. D., Sherrill-Mix, S. A., Everett, J. K., Reddy, S. G., Hokama, P., Roche, A. M., Hwang, Y., Glascock, A. L., Whiteside, S. A., Graham-Wooten, J., et al. (2022) · mBio · doi:10.1128/mbio.03788-21 · Cited by 15

Host genetic diversity and genetic variations of SARS-CoV-2 in COVID-19 pathogenesis and the effectiveness of vaccination

Delshad, M., Sanaei, M., Pourbagheri‐Sigaroodi, A., & Bashash, D. (2022) · International Immunopharmacology · doi:10.1016/j.intimp.2022.109128 · Cited by 18

Display of receptor-binding domain of SARS-CoV-2 Spike protein variants on the Saccharomyces cerevisiae cell surface

Xing, H., Zhu, L., Wang, P., Zhao, G., Zhou, Z., Yang, Y. A., Zou, H., & Yan, X. (2022) · Frontiers in Immunology · doi:10.3389/fimmu.2022.935573 · Cited by 16

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Liang, H., Wu, Y., Yau, V., Yin, H.-X., Lowe, S., Bentley, R., Ahmed, M. A., Zhao, W., & Sun, C. (2022) · Vaccines · doi:10.3390/vaccines10091538 · Cited by 16

The importance of sustained compliance with physical distancing during COVID-19 vaccination rollout

Teslya, A., Rozhnova, G., Pham, T. M., van Wees, D. A., Nunner, H., Godijk, N. G., Bootsma, M., & Kretzschmar, M. (2022) · Communications Medicine · doi:10.1038/s43856-022-00207-3 · Cited by 15

Big data technology in infectious diseases modeling, simulation, and prediction after the COVID-19 outbreak

Shi, H., Wang, J., Cheng, J., Qi, X., Ji, H., Struchiner, C. J., Villela, D. A. M., Ev, K., & Turgiev, A. S. (2023) · Intelligent Medicine · doi:10.1016/j.imed.2023.01.002 · Cited by 19

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Díaz, Y., Ortiz, A., Weeden, A., Castillo, D., González, C., Moreno, B., Martínez-Montero, M., Castillo, M., Vasquez, G., Sáenz, L., et al. (2021) · International Journal of Infectious Diseases · doi:10.1016/j.ijid.2021.06.004 · Cited by 17

Molecular strategies for antibody binding and escape of SARS-CoV-2 and its mutations

Hendy, M. A., Kaufman, S., & Ponga, M. R. (2021) · Scientific Reports · doi:10.1038/s41598-021-01081-0 · Cited by 17

The Successes and Challenges of SARS-CoV-2 Molecular Testing in the United States

Bard, J. D., & Babady, N. E. (2022) · Clinics in Laboratory Medicine · doi:10.1016/j.cll.2022.02.007 · Cited by 16

Molecular epidemiological features of SARS-CoV-2 in Japan, 2020–1

Ode, H., Nakata, Y., Nagashima, M., Hayashi, M., Yamazaki, T., Asakura, H., Suzuki, J., Kubota, M., Matsuoka, K., Matsuda, M., et al. (2022) · Virus Evolution · doi:10.1093/ve/veac034 · Cited by 18

Molecular characterization of SARS-CoV-2 detected in Tokyo, Japan during five waves: Identification of the amino acid substitutions associated with transmissibility and severity

Tsuchiya, K., Yamamoto, N., Hosaka, Y., Wakita, M., Hiki, M., Matsushita, Y., Mori, H., Hori, S., Misawa, S., Miida, T., et al. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.912061 · Cited by 15

Higher risk of SARS-CoV-2 Omicron BA.4/5 infection than of BA.2 infection after previous BA.1 infection, the Netherlands, 2 May to 24 July 2022

Andeweg, S. P., de Gier, B., Vennema, H., Walle, I. V., van Maarseveen, N. M., Kusters, N. E., de Melker, H. E., Hahné, S. J. M., van den Hof, S., Eggink, D., et al. (2023) · Eurosurveillance · doi:10.2807/1560-7917.es.2023.28.7.2200724 · Cited by 14

A comparative analysis of SARS-CoV-2 antivirals in human airway models characterizes 3CL(pro) inhibitor PF-00835231 as a potential new treatment for COVID-19Preprint

de Vries, M., Mohamed, A., Prescott, R. A., Valero-Jimenez, A. M., Desvignes, L., O’Connor, R., Steppan, C. M., Devlin, J. C., Ivanova, E. N., Herrera, A. M., et al. (2021) · PubMed Central · doi:10.1101/2020.08.28.272880 · Cited by 14

SARS‐CoV‐2 R.1 lineage variants that prevailed in Tokyo in March 2021

Nagano, K., Sassa, C. T., Iwasaki, Y., Takatsuki, Y., Yuasa, S., Takahashi, Y., Nakajima, J., Sonobe, K., Ichimura, N., Nukui, Y., et al. (2021) · Journal of Medical Virology · doi:10.1002/jmv.27240 · Cited by 14

SARS-CoV-2 Variants: Mutations and Effective Changes

Park, G., & Hwang, B. H. (2021) · Biotechnology and Bioprocess Engineering · doi:10.1007/s12257-021-0327-3 · Cited by 17

Managing disease containment measures during a pandemic

Shahmanzari, M., Tanrısever, F., Eryarsoy, E., & Şensoy, A. (2022) · Production and Operations Management · doi:10.1111/poms.13656 · Cited by 15

SARS-CoV-2 Delta Variant in Jingmen City, Hubei Province, China, 2021: Children Susceptible and Vaccination Breakthrough Infection

Li, D., Li, A.-E., Li, Z.-Q., Bao, Y., Liu, T., Qin, X., & Yu, X. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.856757 · Cited by 15

Novel super-neutralizing antibody UT28K is capable of protecting against infection from a wide variety of SARS-CoV-2 variants

Ozawa, T., Tani, H., Anraku, Y., Kita, S., Igarashi, E., Saga, Y., Inasaki, N., Kawasuji, H., Yamada, H., Sasaki, S., et al. (2022) · mAbs · doi:10.1080/19420862.2022.2072455 · Cited by 18

COVID-19 Severity and Mortality in Two Pandemic Waves in Poland and Predictors of Poor Outcomes of SARS-CoV-2 Infection in Hospitalized Young Adults

Ziuzia-Januszewska, L., Januszewski, M., Sosnowska-Nowak, J., Janiszewski, M., Dobrzyński, P., Jakimiuk, A. A., & Jakimiuk, A. J. (2022) · Viruses · doi:10.3390/v14081700 · Cited by 17

Lineage BA.2 dominated the Omicron SARS-CoV-2 epidemic wave in the Philippines

Li, Y., Polotan, F. G. M., Sotelo, G. I. S., Alpino, A. P. A., Dolor, A. Y. M., Tujan, M. A. A., Gomez, M. R., Onza, O. J. T., Chang, A. K. T., Bautista, C. T., et al. (2022) · Virus Evolution · doi:10.1093/ve/veac078 · Cited by 16

Comparative analysis of within-host diversity among vaccinated COVID-19 patients infected with different SARS-CoV-2 variants

Al-Khatib, H. A., Smatti, M. K., Ali, F. H., Zedan, H. T., Thomas, S., Ahmed, M. N., Kahlout, R. A. E., Bader, M. A. A., Elgakhlab, D., Coyle, P. V., et al. (2022) · iScience · doi:10.1016/j.isci.2022.105438 · Cited by 14

Rapid Assessment of SARS-CoV-2 Variant-Associated Mutations in Wastewater Using Real-Time RT-PCR

Farkas, K., Pellett, C., Williams, R. J., Alex-Sanders, N., Bassano, I., Brown, M. R., Denise, H., Grimsley, J. M. S., Kevill, J. L., Khalifa, M. S., et al. (2023) · Microbiology Spectrum · doi:10.1128/spectrum.03177-22 · Cited by 15

Drivers of SARS-CoV-2 testing behaviour: a modelling study using nationwide testing data in England

Kim, Y., Donnelly, C. A., & Nouvellet, P. (2023) · Nature Communications · doi:10.1038/s41467-023-37813-1 · Cited by 15

COVID-19 epidemic modelling for policy decision support in Victoria, Australia 2020–2021

Scott, N., Abeysuriya, R., Delport, D., Sacks‐Davis, R., Nolan, J., West, D., Sutton, B. A., Wallace, E. M., & Hellard, M. E. (2023) · BMC Public Health · doi:10.1186/s12889-023-15936-w · Cited by 15

Preeclampsia in the Context of COVID‐19: Mechanisms, Pathophysiology, and Clinical Outcomes

Nobrega, G. D. M., Jones, B. R., Mysorekar, I. U., & Costa, M. L. (2024) · American Journal of Reproductive Immunology · doi:10.1111/aji.13915 · Cited by 16

Hypothesis: Possible influence of antivector immunity and SARS‐CoV‐2 variants on efficacy of ChAdOx1 nCoV‐19 vaccine

Zamai, L., & Rocchi, M. (2021) · British Journal of Pharmacology · doi:10.1111/bph.15620 · Cited by 14

Alpha variant (B.1.1.7) of SARS-CoV-2 increases fatality-rate for patients under age of 70 years and hospitalization risk overall

Cetin, M., BALCI, P., Şıvgın, H., Çetin, Ş., Ülgen, A., Demir, H. D., & Li, W. (2021) · Acta Microbiologica et Immunologica Hungarica · doi:10.1556/030.2021.01524 · Cited by 15

Early-stage spatial disease surveillance of novel SARS-CoV-2 variants of concern in Germany with crowdsourced data

Mitze, T., & Rode, J. (2022) · Scientific Reports · doi:10.1038/s41598-021-04573-1 · Cited by 15

Forecasting the Severity of COVID-19 Pandemic Amidst the Emerging SARS-CoV-2 Variants: Adoption of ARIMA Model

Li, C., Sampene, A. K., Agyeman, F. O., Brenya, R., & Ayisi, A. L. (2022) · Computational and Mathematical Methods in Medicine · doi:10.1155/2022/3163854 · Cited by 15

Assessing the Transmissibility of the New SARS-CoV-2 Variants: From Delta to Omicron

Dong, R., Hu, T., Zhang, Y., Yang, L., & Zhou, X. (2022) · Vaccines · doi:10.3390/vaccines10040496 · Cited by 15

Fundamental limits on inferring epidemic resurgence in real time using effective reproduction numbers

Parag, K. V., & Donnelly, C. A. (2022) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1010004 · Cited by 15

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

Davies, N. G., Abbott, S., Barnard, R. C., Jarvis, C. I., Kucharski, A. J., Munday, J. D., Pearson, C. A. B., Russell, T. W., Tully, D. C., Washburne, A. D., et al. (2021) · Science · doi:10.1126/science.abg3055 · Cited by 2,581

Uncovering Ways That Emerging Severe Acute Respiratory Syndrome Coronavirus 2 Lineages May Increase Transmissibility

Lemieux, J. E., & Li, J. Z. (2021) · The Journal of Infectious Diseases · doi:10.1093/infdis/jiab083 · Cited by 10

Early assessment of diffusion and possible expansion of SARS-CoV-2 Lineage 20I/501Y.V1 (B.1.1.7, variant of concern 202012/01) in France, January to March 2021

Gaymard, A., Bosetti, P., Feri, A., Destras, G., Enouf, V., Andronico, A., Burrel, S., Behillil, S., Sauvage, C., Bal, A., et al. (2021) · Eurosurveillance · doi:10.2807/1560-7917.es.2021.26.9.2100133 · Cited by 72

Increased transmissibility of SARS-CoV-2 lineage B.1.1.7 by age and viral load

Lyngse, F. P., Mølbak, K., Skov, R. L., Christiansen, L. E., Mortensen, L. H., Albertsen, M., Møller, C. H., Krause, T. G., Rasmussen, M., Michaelsen, T. Y., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-27202-x · Cited by 88

Quantification of the spread of SARS-CoV-2 variant B.1.1.7 in SwitzerlandPreprint

Chen, C., Nadeau, S., Topolsky, I., Manceau, M., Huisman, J. S., Jablonski, K. P., Fuhrmann, L., Dreifuss, D., Jahn, K., Beckmann, C., et al. (2021) · medRxiv · doi:10.1101/2021.03.05.21252520 · Cited by 10