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COVID answers in Scientific Journals all over the world


182 Results       Page 1

 [1] 
Public Library of Science: PLoS Computational Biology
  original article Date Title Authors   All Authors
1 [GO] 2024―Jul―12 Epidemiological modeling of SARS-CoV-2 in white-tailed deer (Odocoileus virginianus) reveals conditions for introduction and widespread transmission Elias Rosenblatt, Jonathan D. Cook, Graziella V. DiRenzo, Evan H. Campbell Grant, Fernando Arce, Kim M. Pepin, et al. (+6)
2 [GO] 2024―Jun―12 The influence of cross-border mobility on the COVID-19 epidemic in Nordic countries Mikhail Shubin, Hilde Kjelgaard Brustad, Jørgen Eriksson Midtbø, Felix Günther, Laura Alessandretti, Tapio Ala-Nissila, et al. (+5)
3 [GO] 2024―Jun―10 Mapping the Evolutionary Space of SARS-CoV-2 Variants to Anticipate Emergence of Subvariants Resistant to COVID-19 Therapeutics Roberth Anthony Rojas Chávez, Mohammad Fili, Changze Han, Syed A. Rahman, Isaiah G. L. Bicar, Sullivan Gregory, et al. (+7)
4 [GO] 2024―May―31 Evaluating targeted COVID-19 vaccination strategies with agent-based modeling Thomas J. Hladish, Alexander N. Pillai, Carl A. B. Pearson, Kok Ben Toh, Andrea C. Tamayo, Arlin Stoltzfus, et al. (+2)
5 [GO] 2024―May―28 The impact of health inequity on spatial variation of COVID-19 transmission in England Thomas Rawson, Wes Hinsley, Raphael Sonabend, Elizaveta Semenova, Anne Cori, Neil M Ferguson, Samuel V. Scarpino
6 [GO] 2024―May―17 Real-time forecasting of COVID-19-related hospital strain in France using a non-Markovian mechanistic model Alexander Massey, Corentin Boennec, Claudia Ximena Restrepo-Ortiz, Christophe Blanchet, Samuel Alizon, Mircea T. Sofonea, Virginia E. Pitzer
7 [GO] 2024―May―07 Tying the knot: Unraveling the intricacies of the coronavirus frameshift pseudoknot Luke Trinity, Ulrike Stege, Hosna Jabbari, Arne Elofsson
8 [GO] 2024―May―06 Challenges of COVID-19 Case Forecasting in the US, 2020-2021 Velma K. Lopez, Estee Y. Cramer, Robert Pagano, John M. Drake, Eamon B. O’Dea, Madeline Adee, et al. (+104)
9 [GO] 2024―Mar―28 The multi-dimensional challenges of controlling respiratory virus transmission in indoor spaces: Insights from the linkage of a microscopic pedestrian simulation and SARS-CoV-2 transmission model Büsra Atamer Balkan, You Chang, Martijn Sparnaaij, Berend Wouda, Doris Boschma, Yangfan Liu, et al. (+10)
10 [GO] 2024―Mar―07 Mechanistic insights into ligand dissociation from the SARS-CoV-2 spike glycoprotein Timothy Hasse, Esra Mantei, Rezvan Shahoei, Shristi Pawnikar, Jinan Wang, Yinglong Miao, et al. (+2)
11 [GO] 2024―Jan―31 Modeling geographic vaccination strategies for COVID-19 in Norway Louis Yat Hin Chan, Gunnar Rø, Jørgen Eriksson Midtbø, Francesco Di Ruscio, Sara Sofie Viksmoen Watle, Lene Kristine Juvet, et al. (+14)
12 [GO] 2024―Jan―29 Estimation of introduction and transmission rates of SARS-CoV-2 in a prospective household study Michiel van Boven, Christiaan H. van Dorp, Ilse Westerhof, Vincent Jaddoe, Valerie Heuvelman, Liesbeth Duijts, et al. (+16)
13 [GO] 2024―Jan―25 Mutational signature dynamics indicate SARS-CoV-2’s evolutionary capacity is driven by host antiviral molecules Kieran D. Lamb, Martha M. Luka, Megan Saathoff, Richard J. Orton, My V. T. Phan, Matthew Cotten, et al. (+3)
14 [GO] 2024―Jan―19 PandoGen: Generating complete instances of future SARS-CoV-2 sequences using Deep Learning Anand Ramachandran, Steven S. Lumetta, Deming Chen, Samuel V. Scarpino
15 [GO] 2024―Jan―18 Modelling disease mitigation at mass gatherings: A case study of COVID-19 at the 2022 FIFA World Cup Martin Grunnill, Julien Arino, Zachary McCarthy, Nicola Luigi Bragazzi, Laurent Coudeville, Edward W. Thommes, et al. (+8)
16 [GO] 2024―Jan―08 Near-term forecasting of Covid-19 cases and hospitalisations in Aotearoa New Zealand Michael J. Plank, Leighton Watson, Oliver J. Maclaren, Alex Perkins
17 [GO] 2023―Dec―22 Optimizing COVID-19 testing strategies on college campuses: Evaluation of the health and economic costs Kaitlyn E. Johnson, Remy Pasco, Spencer Woody, Michael Lachmann, Maureen Johnson-Leon, Darlene Bhavnani, et al. (+5)
18 [GO] 2023―Dec―21 An agent-based modeling approach for lung fibrosis in response to COVID-19 Mohammad Aminul Islam, Michael Getz, Paul Macklin, Ashlee N. Ford Versypt, Pamela K Kreeger
19 [GO] 2023―Nov―27 Why are different estimates of the effective reproductive number so different? A case study on COVID-19 in Germany Elisabeth K. Brockhaus, Daniel Wolffram, Tanja Stadler, Michael Osthege, Tanmay Mitra, Jonas M. Littek, et al. (+10)
20 [GO] 2023―Nov―27 A Bayesian inference method to estimate transmission trees with multiple introductions; applied to SARS-CoV-2 in Dutch mink farms Bastiaan R. Van der Roest, Martin C. J. Bootsma, Egil A. J. Fischer, Don Klinkenberg, Mirjam E. E. Kretzschmar, Claudio José Struchiner
21 [GO] 2023―Nov―27 Assessing the importance of demographic risk factors across two waves of SARS-CoV-2 using fine-scale case data Anthony J. Wood, Aeron R. Sanchez, Paul R. Bessell, Rebecca Wightman, Rowland R. Kao, Claudio José Struchiner
22 [GO] 2023―Nov―27 How effective were Australian Quarantine Stations in mitigating transmission aboard ships during the influenza pandemic of 1918-19? Punya Alahakoon, Peter G. Taylor, James M. McCaw, Claudio José Struchiner
23 [GO] 2023―Nov―13 Bayesian spatial modelling of localised SARS-CoV-2 transmission through mobility networks across England Thomas Ward, Mitzi Morris, Andrew Gelman, Bob Carpenter, William Ferguson, Christopher Overton, et al. (+2)
24 [GO] 2023―Nov―08 A data-driven semi-parametric model of SARS-CoV-2 transmission in the United States John M. Drake, Andreas Handel, Éric Marty, Eamon B. O’Dea, Tierney O’Sullivan, Giovanni Righi, et al. (+2)
25 [GO] 2023―Oct―18 Combining the dynamic model and deep neural networks to identify the intensity of interventions during COVID-19 pandemic Mengqi He, Sanyi Tang, Yanni Xiao, Benjamin Althouse
26 [GO] 2023―Sep―18 Marginal effects of public health measures and COVID-19 disease burden in China: A large-scale modelling study Zengmiao Wang, Peiyi Wu, Lin Wang, Bingying Li, Yonghong Liu, Yuxi Ge, et al. (+8)
27 [GO] 2023―Sep―12 Evaluating the use of social contact data to produce age-specific short-term forecasts of SARS-CoV-2 incidence in England James D. Munday, Sam Abbott, Sophie Meakin, Sebastian Funk, Claudio José Struchiner
28 [GO] 2023―Sep―01 Evaluating the impact of test-trace-isolate for COVID-19 management and alternative strategies Kun Zhang, Zhichu Xia, Shudong Huang, Gui-Quan Sun, Jiancheng Lv, Marco Ajelli, et al. (+3)
29 [GO] 2023―Sep―01 Dynamical modelling of viral infection and cooperative immune protection in COVID-19 patients Zhengqing Zhou, Dianjie Li, Ziheng Zhao, Shuyu Shi, Jianghua Wu, Jianwei Li, et al. (+8)
30 [GO] 2023―Aug―11 Collaborative nowcasting of COVID-19 hospitalization incidences in Germany Daniel Wolffram, Sam Abbott, Matthias an der Heiden, Sebastian Funk, Felix Günther, Davide Hailer, et al. (+11)
31 [GO] 2023―Aug―11 Influence of cell type specific infectivity and tissue composition on SARS-CoV-2 infection dynamics within human airway epithelium Benjamin Raach, Nils Bundgaard, Marika J. Haase, Jörn Starruß, Rocio Sotillo, Megan L. Stanifer, et al. (+2)
32 [GO] 2023―Aug―10 SARS-CoV-2 infection perturbs enhancer mediated transcriptional regulation of key pathways Yahel Yedidya, Daniel Davis, Yotam Drier, Shailendra Shivaji Gurav
33 [GO] 2023―Aug―09 Impact of variants of concern on SARS-CoV-2 viral dynamics in non-human primates Aurélien Marc, Romain Marlin, Flora Donati, Mélanie Prague, Marion Kerioui, Cécile Hérate, et al. (+10)
34 [GO] 2023―Aug―07 Modeling the kinetics of the neutralizing antibody response against SARS-CoV-2 variants after several administrations of Bnt162b2 Quentin Clairon, Mélanie Prague, Delphine Planas, Timothée Bruel, Laurent Hocqueloux, Thierry Prazuck, et al. (+4)
35 [GO] 2023―Jul―17 Development of Accurate Long-lead COVID-19 Forecast Wan Yang, Jeffrey Shaman, Benjamin Althouse
36 [GO] 2023―Jul―06 Constructing a full, multiple-layer interactome for SARS-CoV-2 in the context of lung disease: Linking the virus with human genes and microbes Shaoke Lou, Mingjun Yang, Tianxiao Li, Weihao Zhao, Hannah Cevasco, Yucheng T. Yang, et al. (+2)
37 [GO] 2023―Jul―05 DAPTEV: Deep aptamer evolutionary modelling for COVID-19 drug design Cameron Andress, Kalli Kappel, Marcus Elbert Villena, Miroslava Cuperlovic-Culf, Hongbin Yan, Yifeng Li, Alexander MacKerell
38 [GO] 2023―Jun―28 Charting the spatial dynamics of early SARS-CoV-2 transmission in Washington state Tobias S. Brett, Shweta Bansal, Pejman Rohani, Daniel B Larremore
39 [GO] 2023―Jun―21 Learning from the past: A short term forecast method for the COVID-19 incidence curve Jean-David Morel, Jean-Michel Morel, Luis Alvarez, Virginia E. Pitzer
40 [GO] 2023―Jun―01 Disproportionate impacts of COVID-19 in a large US city Spencer J. Fox, Emily Javan, Remy Pasco, Graham C. Gibson, Briana Betke, José L. Herrera-Diestra, et al. (+7)
41 [GO] 2023―May―19 Modelling the structures of frameshift-stimulatory pseudoknots from representative bat coronaviruses Rohith Vedhthaanth Sekar, Patricia J. Oliva, Michael T. Woodside, Tamar Schlick
42 [GO] 2023―May―12 Understanding the impact of mobility on COVID-19 spread: A hybrid gravity-metapopulation model of COVID-19 Sarafa A. Iyaniwura, Notice Ringa, Prince A. Adu, Sunny Mak, Naveed Z. Janjua, Michael A. Irvine, et al. (+2)
43 [GO] 2023―May―05 Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients Megan M. Sperry, Tomiko T. Oskotsky, Ivana Marić, Shruti Kaushal, Takako Takeda, Viktor Horvath, et al. (+18)
44 [GO] 2023―Apr―27 A high-frequency mobility big-data reveals how COVID-19 spread across professions, locations and age groups Chen Zhao, Jialu Zhang, Xiaoyue Hou, Chi Ho Yeung, An Zeng, Benjamin Althouse
45 [GO] 2023―Mar―29 Validation framework for epidemiological models with application to COVID-19 models Kimberly A. Dautel, Ephraim Agyingi, Pras Pathmanathan, Virginia E. Pitzer
46 [GO] 2023―Mar―23 New workflow predicts drug targets against SARS-CoV-2 via metabolic changes in infected cells Nantia Leonidou, Alina Renz, Reihaneh Mostolizadeh, Andreas Dräger, Pedro Mendes
47 [GO] 2023―Feb―28 Shapify: Paths to SARS-CoV-2 frameshifting pseudoknot Luke Trinity, Ian Wark, Lance Lansing, Hosna Jabbari, Ulrike Stege, Tamar Schlick
48 [GO] 2023―Feb―27 Using real-time data to guide decision-making during an influenza pandemic: A modelling analysis David J. Haw, Matthew Biggerstaff, Pragati Prasad, Joseph Walker, Bryan Grenfell, Nimalan Arinaminpathy, Cecile Viboud
49 [GO] 2023―Feb―15 Host heterogeneity and epistasis explain punctuated evolution of SARS-CoV-2 Bjarke Frost Nielsen, Chadi M. Saad-Roy, Yimei Li, Kim Sneppen, Lone Simonsen, Cécile Viboud, et al. (+3)
50 [GO] 2023―Jan―24 Antibody accessibility determines location of spike surface mutations in SARS-CoV-2 variants Sören von Bülow, Mateusz Sikora, Florian E. C. Blanc, Roberto Covino, Gerhard Hummer, Charlotte M Deane
51 [GO] 2023―Jan―23 A real-time regional model for COVID-19: Probabilistic situational awareness and forecasting Solveig Engebretsen, Alfonso Diz-Lois Palomares, Gunnar Rø, Anja Bråthen Kristoffersen, Jonas Christoffer Lindstrøm, Kenth Engø-Monsen, et al. (+10)
52 [GO] 2022―Dec―07 Bayesian nowcasting with leading indicators applied to COVID-19 fatalities in Sweden Fanny Bergström, Felix Günther, Michael Höhle, Tom Britton, Claudio José Struchiner
53 [GO] 2022―Nov―24 Trends in SARS-CoV-2 infection prevalence during England’s roadmap out of lockdown, January to July 2021 Oliver Eales, Haowei Wang, David Haw, Kylie E. C. Ainslie, Caroline E. Walters, Christina Atchison, et al. (+9)
54 [GO] 2022―Nov―22 Effective resistance against pandemics: Mobility network sparsification for high-fidelity epidemic simulations Alexander Mercier, Samuel Scarpino, Cristopher Moore, Feng Fu
55 [GO] 2022―Nov―21 Amino acid variants of SARS-CoV-2 papain-like protease have impact on drug binding Agata P. Perlinska, Adam Stasiulewicz, Mai Lan Nguyen, Karolina Swiderska, Mikolaj Zmudzinski, Alicja W. Maksymiuk, et al. (+3)
56 [GO] 2022―Oct―24 Use of compressed sensing to expedite high-throughput diagnostic testing for COVID-19 and beyond Kody A. Waldstein, Jirong Yi, Myung Cho, Raghu Mudumbai, Xiaodong Wu, Steven M. Varga, et al. (+2)
57 [GO] 2022―Oct―24 Novel methods for estimating the instantaneous and overall COVID-19 case fatality risk among care home residents in England Christoper E. Overton, Luke Webb, Uma Datta, Mike Fursman, Jo Hardstaff, Iina Hiironen, et al. (+8)
58 [GO] 2022―Oct―24 Modelling the first wave of COVID-19 in India Dhiraj Kumar Hazra, Bhalchandra S. Pujari, Snehal M. Shekatkar, Farhina Mozaffer, Sitabhra Sinha, Vishwesha Guttal, et al. (+3)
59 [GO] 2022―Oct―07 Prioritizing interventions for preventing COVID-19 outbreaks in military basic training Guido España, T. Alex Perkins, Simon D. Pollett, Morgan E. Smith, Sean M. Moore, Paul O. Kwon, et al. (+8)
60 [GO] 2022―Oct―06 An ensemble n-sub-epidemic modeling framework for short-term forecasting epidemic trajectories: Application to the COVID-19 pandemic in the USA Gerardo Chowell, Sushma Dahal, Amna Tariq, Kimberlyn Roosa, James M. Hyman, Ruiyan Luo, T. Alex Perkins
61 [GO] 2022―Oct―05 Scalable workflow for characterization of cell-cell communication in COVID-19 patients Yingxin Lin, Lipin Loo, Andy Tran, David M. Lin, Cesar Moreno, Daniel Hesselson, et al. (+3)
62 [GO] 2022―Sep―26 Design of immunogens for eliciting antibody responses that may protect against SARS-CoV-2 variants Eric Wang, Arup K. Chakraborty, Anders Wallqvist
63 [GO] 2022―Sep―23 An expert judgment model to predict early stages of the COVID-19 pandemic in the United States Thomas McAndrew, Nicholas G. Reich, Tom Britton
64 [GO] 2022―Sep―19 Comparing human and model-based forecasts of COVID-19 in Germany and Poland Nikos I. Bosse, Sam Abbott, Johannes Bracher, Habakuk Hain, Billy J. Quilty, Mark Jit, et al. (+4)
65 [GO] 2022―Sep―06 EpiBeds: Data informed modelling of the COVID-19 hospital burden in England Christopher E. Overton, Lorenzo Pellis, Helena B. Stage, Francesca Scarabel, Joshua Burton, Christophe Fraser, et al. (+7)
66 [GO] 2022―Sep―06 A computational framework for modelling infectious disease policy based on age and household structure with applications to the COVID-19 pandemic Joe Hilton, Heather Riley, Lorenzo Pellis, Rabia Aziza, Samuel P. C. Brand, Ivy K. Kombe, et al. (+7)
67 [GO] 2022―Sep―06 Optimizing global COVID-19 vaccine allocation: An agent-based computational model of 148 countries Qingfeng Li, Yajing Huang, Samuel V. Scarpino
68 [GO] 2022―Sep―01 Estimation of heterogeneous instantaneous reproduction numbers with application to characterize SARS-CoV-2 transmission in Massachusetts counties Zhenwei Zhou, Eric D. Kolaczyk, Robin N. Thompson, Laura F. White, Joseph T. Wu
69 [GO] 2022―Aug―30 Reconstructing the course of the COVID-19 epidemic over 2020 for US states and counties: Results of a Bayesian evidence synthesis model Melanie H. Chitwood, Marcus Russi, Kenneth Gunasekera, Joshua Havumaki, Fayette Klaassen, Virginia E. Pitzer, et al. (+7)
70 [GO] 2022―Aug―29 A novel logical model of COVID-19 intracellular infection to support therapies development Elena Piretto, Gianluca Selvaggio, Damiano Bragantini, Enrico Domenici, Luca Marchetti, Julio Saez-Rodriguez
71 [GO] 2022―Aug―26 Seasonal variation in SARS-CoV-2 transmission in temperate climates: A Bayesian modelling study in 143 European regions Tomáš Gavenčiak, Joshua Teperowski Monrad, Gavin Leech, Mrinank Sharma, Sören Mindermann, Samir Bhatt, et al. (+3)
72 [GO] 2022―Aug―24 VGsim: Scalable viral genealogy simulator for global pandemic Vladimir Shchur, Vadim Spirin, Dmitry Sirotkin, Evgeni Burovski, Nicola De Maio, Russell Corbett-Detig, Manja Marz
73 [GO] 2022―Aug―22 Different forms of superspreading lead to different outcomes: Heterogeneity in infectiousness and contact behavior relevant for the case of SARS-CoV-2 Elise J. Kuylen, Andrea Torneri, Lander Willem, Pieter J. K. Libin, Steven Abrams, Pietro Coletti, et al. (+6)
74 [GO] 2022―Aug―15 Consistent pattern of epidemic slowing across many geographies led to longer, flatter initial waves of the COVID-19 pandemic Michal Ben-Nun, Pete Riley, James Turtle, Steven Riley, Eric Lofgren
75 [GO] 2022―Aug―01 Modeling within-host and aerosol dynamics of SARS-CoV-2: The relationship with infectiousness Nora Heitzman-Breen, Stanca M. Ciupe, Andrew J. Yates
76 [GO] 2022―Jul―18 Drug repurposing based on a quantum-inspired method versus classical fingerprinting uncovers potential antivirals against SARS-CoV-2 Jose M. Jimenez-Guardeño, Ana Maria Ortega-Prieto, Borja Menendez Moreno, Thomas J. A. Maguire, Adam Richardson, Juan Ignacio Diaz-Hernandez, et al. (+7)
77 [GO] 2022―Jul―11 Analysis of the docking property of host variants of hACE2 for SARS-CoV-2 in a large cohort Hyojung Paik, Jimin Kim, Sangjae Seo, Alexander MacKerell
78 [GO] 2022―Jul―08 Optimal control of the spatial allocation of COVID-19 vaccines: Italy as a case study Joseph Chadi Lemaitre, Damiano Pasetto, Mario Zanon, Enrico Bertuzzo, Lorenzo Mari, Stefano Miccoli, et al. (+4)
79 [GO] 2022―May―31 Mutational analysis of SARS-CoV-2 variants of concern reveals key tradeoffs between receptor affinity and antibody escape Emily K. Makowski, John S. Schardt, Matthew D. Smith, Peter M. Tessier, Jinyan Li
80 [GO] 2022―May―27 Assessing the impact of lateral flow testing strategies on within-school SARS-CoV-2 transmission and absences: A modelling study Trystan Leng, Edward M. Hill, Robin N. Thompson, Michael J. Tildesley, Matt J. Keeling, Louise Dyson, Joseph T. Wu
81 [GO] 2022―May―25 Anatomy of the first six months of COVID-19 vaccination campaign in Italy Nicolò Gozzi, Matteo Chinazzi, Jessica T. Davis, Kunpeng Mu, Ana Pastore y Piontti, Marco Ajelli, et al. (+3)
82 [GO] 2022―May―19 Enhancing long-term forecasting: Learning from COVID-19 models Hazhir Rahmandad, Ran Xu, Navid Ghaffarzadegan, Claudio José Struchiner
83 [GO] 2022―May―18 Networks of necessity: Simulating COVID-19 mitigation strategies for disabled people and their caregivers Thomas E. Valles, Hannah Shoenhard, Joseph Zinski, Sarah Trick, Mason A. Porter, Michael R. Lindstrom, Jacopo Grilli
84 [GO] 2022―May―16 Appropriate relaxation of non-pharmaceutical interventions minimizes the risk of a resurgence in SARS-CoV-2 infections in spite of the Delta variant Wadim Koslow, Martin J. Kühn, Sebastian Binder, Margrit Klitz, Daniel Abele, Achim Basermann, et al. (+2)
85 [GO] 2022―May―12 Structural dynamics of SARS-CoV-2 nucleocapsid protein induced by RNA binding Helder Veras Ribeiro-Filho, Gabriel Ernesto Jara, Fernanda Aparecida Heleno Batista, Gabriel Ravanhani Schleder, Celisa Caldana Costa Tonoli, Adriana Santos Soprano, et al. (+11)
86 [GO] 2022―Apr―29 phastSim: Efficient simulation of sequence evolution for pandemic-scale datasets Nicola De Maio, William Boulton, Lukas Weilguny, Conor R. Walker, Yatish Turakhia, Russell Corbett-Detig, et al. (+2)
87 [GO] 2022―Apr―11 Digital contact tracing and network theory to stop the spread of COVID-19 using big-data on human mobility geolocalization Matteo Serafino, Higor S. Monteiro, Shaojun Luo, Saulo D. S. Reis, Carles Igual, Antonio S. Lima Neto, et al. (+4)
88 [GO] 2022―Apr―11 Computational drug repurposing against SARS-CoV-2 reveals plasma membrane cholesterol depletion as key factor of antiviral drug activity Szilvia Barsi, Henrietta Papp, Alberto Valdeolivas, Dániel J. Tóth, Anett Kuczmog, Mónika Madai, et al. (+6)
89 [GO] 2022―Apr―07 Adaptive and optimized COVID-19 vaccination strategies across geographical regions and age groups Jeta Molla, Alejandro Ponce de León Chávez, Takayuki Hiraoka, Tapio Ala-Nissila, Mikko Kivelä, Lasse Leskelä, Claudio José Struchiner
90 [GO] 2022―Apr―04 Meteorological factors and non-pharmaceutical interventions explain local differences in the spread of SARS-CoV-2 in Austria Katharina Ledebur, Michaela Kaleta, Jiaying Chen, Simon D. Lindner, Caspar Matzhold, Florian Weidle, et al. (+10)
91 [GO] 2022―Mar―31 Near real-time surveillance of the SARS-CoV-2 epidemic with incomplete data Pablo M. De Salazar, Fred Lu, James A Hay, Diana Gómez-Barroso, Pablo Fernández-Navarro, Elena V Martínez, et al. (+12)
92 [GO] 2022―Mar―30 Performance of early warning signals for disease re-emergence: A case study on COVID-19 data Daniele Proverbio, Françoise Kemp, Stefano Magni, Jorge Gonçalves, Benjamin Althouse
93 [GO] 2022―Mar―30 Inferring age-specific differences in susceptibility to and infectiousness upon SARS-CoV-2 infection based on Belgian social contact data Nicolas Franco, Pietro Coletti, Lander Willem, Leonardo Angeli, Adrien Lajot, Steven Abrams, et al. (+4)
94 [GO] 2022―Mar―25 Assessing the best time interval between doses in a two-dose vaccination regimen to reduce the number of deaths in an ongoing epidemic of SARS-CoV-2 Leonardo Souto Ferreira, Otavio Canton, Rafael Lopes Paixão da Silva, Silas Poloni, Vítor Sudbrack, Marcelo Eduardo Borges, et al. (+7)
95 [GO] 2022―Mar―07 Multiphysics and multiscale modeling of microthrombosis in COVID-19 He Li, Yixiang Deng, Zhen Li, Ander Dorken Gallastegi, Christos S. Mantzoros, Galit H. Frydman, et al. (+2)
96 [GO] 2022―Mar―02 Missense variants in human ACE2 strongly affect binding to SARS-CoV-2 Spike providing a mechanism for ACE2 mediated genetic risk in Covid-19: A case study in affinity predictions of interface variants Stuart A. MacGowan, Michael I. Barton, Mikhail Kutuzov, Omer Dushek, P. Anton van der Merwe, Geoffrey J. Barton, Charlotte M. Deane
97 [GO] 2022―Feb―25 The role of childrens’ vaccination for COVID-19-Pareto-optimal allocations of vaccines Nir Gavish, Guy Katriel, Alison L. Hill
98 [GO] 2022―Feb―23 Bayesian data assimilation for estimating instantaneous reproduction numbers during epidemics: Applications to COVID-19 Xian Yang, Shuo Wang, Yuting Xing, Ling Li, Richard Yi Da Xu, Karl J. Friston, et al. (+2)
99 [GO] 2022―Feb―10 Predicted impact of the viral mutational landscape on the cytotoxic response against SARS-CoV-2 Anna Foix, Daniel López, Francisco Díez-Fuertes, Michael J. McConnell, Antonio J. Martín-Galiano, Roger Dimitri Kouyos
100 [GO] 2022―Jan―19 Extended ensemble simulations of a SARS-CoV-2 nsp1-5’-UTR complex Shun Sakuraba, Qilin Xie, Kota Kasahara, Junichi Iwakiri, Hidetoshi Kono, Bert L. de Groot
101 [GO] 2022―Jan―18 Longitudinally monitored immune biomarkers predict the timing of COVID-19 outcomes Gorka Lasso, Saad Khan, Stephanie A. Allen, Margarette Mariano, Catalina Florez, Erika P. Orner, et al. (+27)
102 [GO] 2022―Jan―12 Hybrid simulation modelling of networks of heterogeneous care homes and the inter-facility spread of Covid-19 by sharing staff Le Khanh Ngan Nguyen, Itamar Megiddo, Susan Howick, Claudio José Struchiner
103 [GO] 2022―Jan―04 Microsimulation based quantitative analysis of COVID-19 management strategies István Z. Reguly, Dávid Csercsik, János Juhász, Kálmán Tornai, Zsófia Bujtár, Gergely Horváth, et al. (+9)
104 [GO] 2021―Dec―23 Spatially distributed infection increases viral load in a computational model of SARS-CoV-2 lung infection Melanie E. Moses, Steven Hofmeyr, Judy L. Cannon, Akil Andrews, Rebekah Gridley, Monica Hinga, et al. (+6)
105 [GO] 2021―Dec―16 Modeling the onset of symptoms of COVID-19: Effects of SARS-CoV-2 variant Joseph R. Larsen, Margaret R. Martin, John D. Martin, James B. Hicks, Peter Kuhn, Bard Ermentrout
106 [GO] 2021―Dec―13 Optimal vaccine allocation for COVID-19 in the Netherlands: A data-driven prioritization Fuminari Miura, Ka Yin Leung, Don Klinkenberg, Kylie E. C. Ainslie, Jacco Wallinga, Claudio José Struchiner
107 [GO] 2021―Dec―13 Viral surface geometry shapes influenza and coronavirus spike evolution through antibody pressure Assaf Amitai, Becca Asquith
108 [GO] 2021―Dec―13 Epitope profiling using computational structural modelling demonstrated on coronavirus-binding antibodies Sarah A. Robinson, Matthew I. J. Raybould, Constantin Schneider, Wing Ki Wong, Claire Marks, Charlotte M. Deane, Franca Fraternali
109 [GO] 2021―Nov―24 Data-driven multi-scale mathematical modeling of SARS-CoV-2 infection reveals heterogeneity among COVID-19 patients Shun Wang, Mengqian Hao, Zishu Pan, Jinzhi Lei, Xiufen Zou, Amber M Smith
110 [GO] 2021―Nov―18 Comparative genomic analysis reveals varying levels of mammalian adaptation to coronavirus infections Sean B. King, Mona Singh, Teresa M. Przytycka
111 [GO] 2021―Oct―28 Synergistic interventions to control COVID-19: Mass testing and isolation mitigates reliance on distancing Emily Howerton, Matthew J. Ferrari, Ottar N. Bjørnstad, Tiffany L. Bogich, Rebecca K. Borchering, Chris P. Jewell, et al. (+7)
112 [GO] 2021―Oct―25 OutbreakFlow: Model-based Bayesian inference of disease outbreak dynamics with invertible neural networks and its application to the COVID-19 pandemics in Germany Stefan T. Radev, Frederik Graw, Simiao Chen, Nico T. Mutters, Vanessa M. Eichel, Till Bärnighausen, et al. (+2)
113 [GO] 2021―Oct―19 Factors affecting aerosol SARS-CoV-2 transmission via HVAC systems; a modeling study Zachary J. Cotman, Michael J. Bowden, Barrett P. Richter, Joseph H. Phelps, Christopher J. Dibble, Alison L. Marsden
114 [GO] 2021―Oct―14 Universal risk phenotype of US counties for flu-like transmission to improve county-specific COVID-19 incidence forecasts Yi Huang, Ishanu Chattopadhyay, Benjamin Muir Althouse
115 [GO] 2021―Oct―14 Interplay between mobility, multi-seeding and lockdowns shapes COVID-19 local impact Mattia Mazzoli, Emanuele Pepe, David Mateo, Ciro Cattuto, Laetitia Gauvin, Paolo Bajardi, et al. (+5)
116 [GO] 2021―Sep―20 Levels of SARS-CoV-2 population exposure are considerably higher than suggested by seroprevalence surveys Siyu Chen, Jennifer A. Flegg, Lisa J. White, Ricardo Aguas, Claudio José Struchiner
117 [GO] 2021―Sep―17 Uncertainty quantification and sensitivity analysis of COVID-19 exit strategies in an individual-based transmission model Federica Gugole, Luc E. Coffeng, Wouter Edeling, Benjamin Sanderse, Sake J. de Vlas, Daan Crommelin, Don Klinkenberg
118 [GO] 2021―Sep―13 Characterization of the NiRAN domain from RNA-dependent RNA polymerase provides insights into a potential therapeutic target against SARS-CoV-2 Abhisek Dwivedy, Richard Mariadasse, Mohammed Ahmad, Sayan Chakraborty, Deepsikha Kar, Satish Tiwari, et al. (+8)
119 [GO] 2021―Sep―10 The importance of non-pharmaceutical interventions during the COVID-19 vaccine rollout Nicolò Gozzi, Paolo Bajardi, Nicola Perra, Roger Dimitri Kouyos
120 [GO] 2021―Sep―08 An integrated framework for building trustworthy data-driven epidemiological models: Application to the COVID-19 outbreak in New York City Sheng Zhang, Joan Ponce, Zhen Zhang, Guang Lin, George Karniadakis, Sergei L. Kosakovsky Pond
121 [GO] 2021―Sep―07 Using test positivity and reported case rates to estimate state-level COVID-19 prevalence and seroprevalence in the United States Weihsueh A. Chiu, Martial L. Ndeffo-Mbah, Benjamin Muir Althouse
122 [GO] 2021―Sep―07 Structural and energetic profiling of SARS-CoV-2 receptor binding domain antibody recognition and the impact of circulating variants Rui Yin, Johnathan D. Guest, Ghazaleh Taherzadeh, Ragul Gowthaman, Ipsa Mittra, Jane Quackenbush, et al. (+2)
123 [GO] 2021―Sep―02 Relaxing restrictions at the pace of vaccination increases freedom and guards against further COVID-19 waves Simon Bauer, Sebastian Contreras, Jonas Dehning, Matthias Linden, Emil Iftekhar, Sebastian B. Mohr, et al. (+3)
124 [GO] 2021―Aug―30 Targeted pandemic containment through identifying local contact network bottlenecks Shenghao Yang, Priyabrata Senapati, Di Wang, Chris T. Bauch, Kimon Fountoulakis, Benjamin Muir Althouse
125 [GO] 2021―Aug―26 Mitigating COVID-19 outbreaks in workplaces and schools by hybrid telecommuting Simon Mauras, Vincent Cohen-Addad, Guillaume Duboc, Max Dupré la Tour, Paolo Frasca, Claire Mathieu, et al. (+3)
126 [GO] 2021―Aug―12 Using mobility data in the design of optimal lockdown strategies for the COVID-19 pandemic Ritabrata Dutta, Susana N. Gomes, Dante Kalise, Lorenzo Pacchiardi, Matthew (Matt) Ferrari
127 [GO] 2021―Aug―05 Modelling conformational state dynamics and its role on infection for SARS-CoV-2 Spike protein variants Natália Teruel, Olivier Mailhot, Rafael J. Najmanovich, Roland L. Dunbrack
128 [GO] 2021―Jul―26 Covasim: An agent-based model of COVID-19 dynamics and interventions Cliff C. Kerr, Robyn M. Stuart, Dina Mistry, Romesh G. Abeysuriya, Katherine Rosenfeld, Gregory R. Hart, et al. (+21)
129 [GO] 2021―Jul―26 A mechanistic and data-driven reconstruction of the time-varying reproduction number: Application to the COVID-19 epidemic Bernard Cazelles, Clara Champagne, Benjamin Nguyen-Van-Yen, Catherine Comiskey, Elisabeta Vergu, Benjamin Roche, Roger Dimitri Kouyos
130 [GO] 2021―Jul―26 Projecting contact matrices in 177 geographical regions: An update and comparison with empirical data for the COVID-19 era Kiesha Prem, Kevin van Zandvoort, Petra Klepac, Rosalind M. Eggo, Nicholas G. Davies, Alex R. Cook, et al. (+2)
131 [GO] 2021―Jul―22 Optimizing testing for COVID-19 in India Philip Cherian, Sandeep Krishna, Gautam I. Menon, Benjamin Muir Althouse
132 [GO] 2021―Jul―20 Spatially resolved simulations of the spread of COVID-19 in three European countries Andrea Parisi, Samuel P. C. Brand, Joe Hilton, Rabia Aziza, Matt J. Keeling, D. James Nokes, Alex Perkins
133 [GO] 2021―Jul―14 COVIDomic: A multi-modal cloud-based platform for identification of risk factors associated with COVID-19 severity Vladimir Naumov, Evgeny Putin, Stefan Pushkov, Ekaterina Kozlova, Konstantin Romantsov, Alexander Kalashnikov, et al. (+18)
134 [GO] 2021―Jul―12 Detecting behavioural changes in human movement to inform the spatial scale of interventions against COVID-19 Hamish Gibbs, Emily Nightingale, Yang Liu, James Cheshire, Leon Danon, Liam Smeeth, et al. (+5)
135 [GO] 2021―Jul―12 OpenABM-Covid19-An agent-based model for non-pharmaceutical interventions against COVID-19 including contact tracing Robert Hinch, William J. M. Probert, Anel Nurtay, Michelle Kendall, Chris Wymant, Matthew Hall, et al. (+21)
136 [GO] 2021―Jul―12 Bayesian back-calculation and nowcasting for line list data during the COVID-19 pandemic Tenglong Li, Laura F. White, Alex Perkins
137 [GO] 2021―Jul―08 COVID-19 in schools: Mitigating classroom clusters in the context of variable transmission Paul Tupper, Caroline Colijn, Philip K. Maini
138 [GO] 2021―Jul―08 COVID-19 modeling and non-pharmaceutical interventions in an outpatient dialysis unit Hankyu Jang, Philip M. Polgreen, Alberto M. Segre, Sriram V. Pemmaraju, Roger Dimitri Kouyos
139 [GO] 2021―Jul―08 The interplay of SARS-CoV-2 evolution and constraints imposed by the structure and functionality of its proteins Lukasz Jaroszewski, Mallika Iyer, Arghavan Alisoltani, Mayya Sedova, Adam Godzik, Marco Punta
140 [GO] 2021―Jun―23 Contrasting factors associated with COVID-19-related ICU admission and death outcomes in hospitalised patients by means of Shapley values Massimo Cavallaro, Haseeb Moiz, Matt J. Keeling, Noel D. McCarthy, Benjamin Muir Althouse
141 [GO] 2021―Jun―17 Contact tracing efficiency, transmission heterogeneity, and accelerating COVID-19 epidemics Billy J. Gardner, A. Marm Kilpatrick, Sebastian Funk
142 [GO] 2021―Jun―17 Estimating the cumulative incidence of COVID-19 in the United States using influenza surveillance, virologic testing, and mortality data: Four complementary approaches Fred S. Lu, Andre T. Nguyen, Nicholas B. Link, Mathieu Molina, Jessica T. Davis, Matteo Chinazzi, et al. (+5)
143 [GO] 2021―Jun―16 A network modelling approach to assess non-pharmaceutical disease controls in a worker population: An application to SARS-CoV-2 Edward M. Hill, Benjamin D. Atkins, Matt J. Keeling, Louise Dyson, Michael J. Tildesley, Mercedes Pascual
144 [GO] 2021―May―27 Estimating direct and spill-over impacts of political elections on COVID-19 transmission using synthetic control methods Jue Tao Lim, Kenwin Maung, Sok Teng Tan, Suan Ee Ong, Jane Mingjie Lim, Joel Ruihan Koo, et al. (+7)
145 [GO] 2021―May―06 Modelling optimal vaccination strategy for SARS-CoV-2 in the UK Sam Moore, Edward M. Hill, Louise Dyson, Michael J. Tildesley, Matt J. Keeling, Alex Perkins
146 [GO] 2021―Apr―09 Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection Piyush Nanda, Amit Ghosh, Anders Wallqvist
147 [GO] 2021―Apr―01 Computational epitope map of SARS-CoV-2 spike protein Mateusz Sikora, Sören von Bülow, Florian E. C. Blanc, Michael Gecht, Roberto Covino, Gerhard Hummer, Alexander MacKerell
148 [GO] 2021―Mar―29 Pandemic velocity: Forecasting COVID-19 in the US with a machine learning & Bayesian time series compartmental model Gregory L. Watson, Di Xiong, Lu Zhang, Joseph A. Zoller, John Shamshoian, Phillip Sundin, et al. (+5)
149 [GO] 2021―Mar―29 On realized serial and generation intervals given control measures: The COVID-19 pandemic case Andrea Torneri, Peter Libin, Gianpaolo Scalia Tomba, Christel Faes, James G. Wood, Niel Hens, Alex Perkins
150 [GO] 2021―Mar―17 Gene variants of coagulation related proteins that interact with SARS-CoV-2 David Holcomb, Aikaterini Alexaki, Nancy Hernandez, Ryan Hunt, Kyle Laurie, Jacob Kames, et al. (+5)
151 [GO] 2021―Mar―17 SARS-CoV-2 viral dynamics in non-human primates Antonio Gonçalves, Pauline Maisonnasse, Flora Donati, Mélanie Albert, Sylvie Behillil, Vanessa Contreras, et al. (+22)
152 [GO] 2021―Mar―09 Assessing the feasibility and effectiveness of household-pooled universal testing to control COVID-19 epidemics Pieter J. K. Libin, Lander Willem, Timothy Verstraeten, Andrea Torneri, Joris Vanderlocht, Niel Hens, Alex Perkins
153 [GO] 2021―Mar―08 A network-informed analysis of SARS-CoV-2 and hemophagocytic lymphohistiocytosis genes’ interactions points to Neutrophil extracellular traps as mediators of thrombosis in COVID-19 Jun Ding, David Earl Hostallero, Mohamed Reda El Khili, Gregory Joseph Fonseca, Simon Milette, Nuzha Noorah, et al. (+8)
154 [GO] 2021―Mar―04 Age-structured non-pharmaceutical interventions for optimal control of COVID-19 epidemic Quentin Richard, Samuel Alizon, Marc Choisy, Mircea T. Sofonea, Ramsès Djidjou-Demasse, Gabor Balazsi
155 [GO] 2021―Mar―04 Group testing as a strategy for COVID-19 epidemiological monitoring and community surveillance Vincent Brault, Bastien Mallein, Jean-François Rupprecht, Jingyi Jessica Li
156 [GO] 2021―Mar―01 Success of prophylactic antiviral therapy for SARS-CoV-2: Predicted critical efficacies and impact of different drug-specific mechanisms of action Peter Czuppon, Florence Débarre, Antonio Gonçalves, Olivier Tenaillon, Alan S. Perelson, Jérémie Guedj, et al. (+2)
157 [GO] 2021―Feb―26 Estimating the cumulative incidence of SARS-CoV-2 with imperfect serological tests: Exploiting cutoff-free approaches Judith A. Bouman, Julien Riou, Sebastian Bonhoeffer, Roland R. Regoes, James Lloyd-Smith
158 [GO] 2021―Feb―11 The role of children in the spread of COVID-19: Using household data from Bnei Brak, Israel, to estimate the relative susceptibility and infectivity of children Itai Dattner, Yair Goldberg, Guy Katriel, Rami Yaari, Nurit Gal, Yoav Miron, et al. (+5)
159 [GO] 2021―Feb―08 SAveRUNNER: A network-based algorithm for drug repurposing and its application to COVID-19 Giulia Fiscon, Federica Conte, Lorenzo Farina, Paola Paci, Manja Marz
160 [GO] 2021―Feb―03 Dynamics of COVID-19 under social distancing measures are driven by transmission network structure Anjalika Nande, Ben Adlam, Justin Sheen, Michael Z. Levy, Alison L. Hill, Alex Perkins
161 [GO] 2021―Feb―03 ViralLink: An integrated workflow to investigate the effect of SARS-CoV-2 on intracellular signalling and regulatory pathways Agatha Treveil, Balazs Bohar, Padhmanand Sudhakar, Lejla Gul, Luca Csabai, Marton Olbei, et al. (+7)
162 [GO] 2021―Jan―29 Assessing the potential impact of transmission during prolonged viral shedding on the effect of lockdown relaxation on COVID-19 Burcu Tepekule, Anthony Hauser, Viacheslav N. Kachalov, Sara Andresen, Thomas Scheier, Peter W. Schreiber, et al. (+3)
163 [GO] 2021―Jan―29 Estimating the time-varying reproduction number of COVID-19 with a state-space method Shinsuke Koyama, Taiki Horie, Shigeru Shinomoto, Roger Dimitri Kouyos
164 [GO] 2021―Jan―22 Predictions of COVID-19 dynamics in the UK: Short-term forecasting and analysis of potential exit strategies Matt J. Keeling, Edward M. Hill, Erin E. Gorsich, Bridget Penman, Glen Guyver-Fletcher, Alex Holmes, et al. (+6)
165 [GO] 2021―Jan―21 Post-lockdown abatement of COVID-19 by fast periodic switching Michelangelo Bin, Peter Y. K. Cheung, Emanuele Crisostomi, Pietro Ferraro, Hugo Lhachemi, Roderick Murray-Smith, et al. (+6)
166 [GO] 2021―Jan―19 Modeling the structure of the frameshift-stimulatory pseudoknot in SARS-CoV-2 reveals multiple possible conformers Sara Ibrahim Omar, Meng Zhao, Rohith Vedhthaanth Sekar, Sahar Arbabi Moghadam, Jack A. Tuszynski, Michael T. Woodside, Alexander MacKerell
167 [GO] 2021―Jan―07 The value of decreasing the duration of the infectious period of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection Bruce Y. Lee, Sarah M. Bartsch, Marie C. Ferguson, Patrick T. Wedlock, Kelly J. O’Shea, Sheryl S. Siegmund, et al. (+3)
168 [GO] 2020―Dec―31 A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro Haiping Zhang, Yang Yang, Junxin Li, Min Wang, Konda Mani Saravanan, Jinli Wei, et al. (+12)
169 [GO] 2020―Dec―28 The COVID-19 outbreak in Sichuan, China: Epidemiology and impact of interventions Quan-Hui Liu, Ana I. Bento, Kexin Yang, Hang Zhang, Xiaohan Yang, Stefano Merler, et al. (+7)
170 [GO] 2020―Dec―18 Ten simple rules for creating a brand-new virtual academic meeting (even amid a pandemic) Scott Rich, Andreea O. Diaconescu, John D. Griffiths, Milad Lankarany, Scott Markel
171 [GO] 2020―Dec―09 Empirical model for short-time prediction of COVID-19 spreading Martí Català, Sergio Alonso, Enrique Alvarez-Lacalle, Daniel López, Pere-Joan Cardona, Clara Prats, Benjamin Muir Althouse
172 [GO] 2020―Dec―08 Targeting TMPRSS2 and Cathepsin B/L together may be synergistic against SARS-CoV-2 infection Pranesh Padmanabhan, Rajat Desikan, Narendra M. Dixit, Miles P. Davenport
173 [GO] 2020―Dec―07 In silico mutagenesis of human ACE2 with S protein and translational efficiency explain SARS-CoV-2 infectivity in different species Javier Delgado Blanco, Xavier Hernandez-Alias, Damiano Cianferoni, Luis Serrano, Rachel Kolodny
174 [GO] 2020―Dec―03 Quantifying the impact of COVID-19 control measures using a Bayesian model of physical distancing Sean C. Anderson, Andrew M. Edwards, Madi Yerlanov, Nicola Mulberry, Jessica E. Stockdale, Sarafa A. Iyaniwura, et al. (+7)
175 [GO] 2020―Dec―03 Insights on cross-species transmission of SARS-CoV-2 from structural modeling João P. G. L. M. Rodrigues, Susana Barrera-Vilarmau, João M. C. Teixeira, Marija Sorokina, Elizabeth Seckel, Panagiotis L. Kastritis, et al. (+2)
176 [GO] 2020―Oct―29 Ten simple rules for women principal investigators during a pandemic Pamela K. Kreeger, Amy Brock, Holly C. Gibbs, K. Jane Grande-Allen, Alice H. Huang, Kristyn S. Masters, et al. (+4)
177 [GO] 2020―Oct―15 A model-based evaluation of the efficacy of COVID-19 social distancing, testing and hospital triage policies Audrey McCombs, Claus Kadelka, James Lloyd-Smith
178 [GO] 2020―Oct―08 Use of Angiotensin-Converting Enzyme Inhibitors and Angiotensin II Receptor Blockers During the COVID-19 Pandemic: A Modeling Analysis Mehrshad Sadria, Anita T. Layton, Daniel A. Beard
179 [GO] 2020―Sep―17 Genetic grouping of SARS-CoV-2 coronavirus sequences using informative subtype markers for pandemic spread visualization Zhengqiao Zhao, Bahrad A. Sokhansanj, Charvi Malhotra, Kitty Zheng, Gail L. Rosen, Nicola Segata
180 [GO] 2020―Jul―02 Estimation of country-level basic reproductive ratios for novel Coronavirus (SARS-CoV-2/COVID-19) using synthetic contact matrices Joe Hilton, Matt J. Keeling, Jennifer A. Flegg
181 [GO] 2020―Jun―25 Ten simple rules for researchers while in isolation from a pandemic Hoe-Han Goh, Philip E. Bourne, Scott Markel
182 [GO] 2020―Feb―07 Phylogeographic reconstruction using air transportation data and its application to the 2009 H1N1 influenza A pandemic Susanne Reimering, Sebastian Muñoz, Alice C. McHardy, Cecile Viboud
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