Selected Publications
Journal Articles
Mishra S, Mindermann S, Sharma M, et al.Mishra S, Mindermann S, Sharma M, Whittaker C, Mellan TA, Wilton T, Klapsa D, Mate R, Fritzsche M, Zambon M, Ahuja J, Howes A, Miscouridou X, Nason GP, Ratmann O, Semenova E, Leech G, Sandkuehler JF, Rogers-Smith C, Vollmer M, Unwin HJT, Gal Y, Chand M, Gandy A, Martin J, Volz E, Ferguson NM, Bhatt S, Brauner JM, Flaxman S close, 2021, Changing composition of SARS-CoV-2 lineages and rise of Delta variant in England, Eclinicalmedicine, Vol:39
Mishra S, Scott JA, Laydon DJ, et al.Mishra S, Scott JA, Laydon DJ, Flaxman S, Gandy A, Mellan TA, Unwin HJT, Vollmer M, Coupland H, Ratmann O, Monod M, Zhu HH, Cori A, Gaythorpe KAM, Whittles LK, Whittaker C, Donnelly CA, Ferguson NM, Bhatt S close, 2021, Comparing the responses of the UK, Sweden and Denmark to COVID-19 using counterfactual modelling, Scientific Reports, Vol:11, ISSN:2045-2322, Pages:1-9
Mohler G, Mishra S, Ray B, et al.Mohler G, Mishra S, Ray B, Magee L, Huynh P, Canada M, O'Donnell D, Flaxman S close, 2021, A modified two-process Knox test for investigating the relationship between law enforcement opioid seizures and overdoses, Proceedings of the Royal Society A: Mathematical, Physical & Engineering Sciences, Vol:477, ISSN:1364-5021
Faria NR, Mellan TA, Whittaker C, et al.Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FC, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, Coletti TM, Ferreira GM, Silva CAM, Manuli ER, Pereira RHM, Peixoto PS, Kraemer MU, Gaburo N, Camilo CDC, Hoeltgebaum H, Souza WM, Rocha EC, de Souza LM, de Pinho MC, Araujo LJT, Malta FS, de Lima AB, Silva JDP, Zauli DAG, Ferreira ACDS, Schnekenberg RP, Laydon DJ, Walker PGT, Schlueter HM, dos Santos ALP, Vidal MS, Del Caro VS, Filho RMF, dos Santos HM, Aguiar RS, Proenca-Modena JLP, Nelson B, Hay JA, Monod M, Miscouridou X, Coupland H, Sonabend R, Vollmer M, Gandy A, Prete CA, Nascimento VH, Suchard MA, Bowden TA, Pond SLK, Wu C-H, Ratmann O, Ferguson NM, Dye C, Loman NJ, Lemey P, Rambaut A, Fraiji NA, Carvalho MDPSS, Pybus OG, Flaxman S, Bhatt S, Sabino EC close, 2021, Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil, Science, Vol:372, ISSN:0036-8075, Pages:815-821
Volz E, Mishra S, Chand M, et al.Volz E, Mishra S, Chand M, Barrett JC, Johnson R, Geidelberg L, Hinsley WR, Laydon DJ, Dabrera G, O'Toole Á, Amato R, Ragonnet-Cronin M, Harrison I, Jackson B, Ariani CV, Boyd O, Loman NJ, McCrone JT, Gonçalves S, Jorgensen D, Myers R, Hill V, Jackson DK, Gaythorpe K, Groves N, Sillitoe J, Kwiatkowski DP, COVID-19 Genomics UK (COG-UK) consortium, Flaxman S, Ratmann O, Bhatt S, Hopkins S, Gandy A, Rambaut A, Ferguson NM close, 2021, Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England, Nature, Vol:593, ISSN:0028-0836, Pages:266-269
Laydon D, Mishra S, Hinsley W, et al.Laydon D, Mishra S, Hinsley W, Samartsidis P, Flaxman S, Gandy A, Ferguson N, Bhatt S close, 2021, Modelling the impact of the Tier system on SARS-CoV-2 transmission in the UK between the first and second national lockdowns, Bmj Open, Vol:11, ISSN:2044-6055
Unwin HJT, Routledge I, Flaxman S, et al.Unwin HJT, Routledge I, Flaxman S, Rizoiu M-A, Lai S, Cohen J, Weiss DJ, Mishra S, Bhatt S close, 2021, Using Hawkes Processes to model imported and local malaria cases in near-elimination settings, PLOS Computational Biology, Vol:17, ISSN:1553-734X
Monod M, Blenkinsop A, Xi X, et al.Monod M, Blenkinsop A, Xi X, Hebert D, Bershan S, Tietze S, Baguelin M, Bradley VC, Chen Y, Coupland H, Filippi S, Ish-Horowicz J, McManus M, Mellan T, Gandy A, Hutchinson M, Unwin HJT, van Elsland SL, Vollmer MAC, Weber S, Zhu H, Bezancon A, Ferguson NM, Mishra S, Flaxman S, Bhatt S, Ratmann O close, 2021, Age groups that sustain resurging COVID-19 epidemics in the United States, Science, Vol:371, ISSN:0036-8075
Unwin H, Mishra S, Bradley V, et al.Unwin H, Mishra S, Bradley V, Gandy A, Mellan T, Coupland H, Ish-Horowicz J, Vollmer M, Whittaker C, Filippi S, Xi X, Monod M, Ratmann O, Hutchinson M, Valka F, Zhu H, Hawryluk I, Milton P, Ainslie K, Baguelin M, Boonyasiri A, Brazeau N, Cattarino L, Cucunuba Z, Cuomo-Dannenburg G, Dorigatti I, Eales O, Eaton J, van Elsland S, Fitzjohn R, Gaythorpe K, Green W, Hinsley W, Jeffrey B, Knock E, Laydon D, Lees J, Nedjati-Gilani G, Nouvellet P, Okell L, Parag K, Siveroni I, Thompson H, Walker P, Walters C, Watson O, Whittles L, Ghani A, Ferguson N, Riley S, Donnelly C, Bhatt S, Flaxman S close, 2020, State-level tracking of COVID-19 in the United States, Nature Communications, Vol:11, ISSN:2041-1723, Pages:1-9
Mishra S, Scott J, Zhu H, et al.Mishra S, Scott J, Zhu H, Ferguson NM, Bhatt S, Flaxman S, Gandy A close, 2020, A COVID-19 Model for Local Authorities of the United Kingdom
Candido DS, Claro IM, de Jesus JG, et al.Candido DS, Claro IM, de Jesus JG, Souza WM, Moreira FRR, Dellicour S, Mellan TA, du Plessis L, Pereira RHM, Sales FCS, Manuli ER, Theze J, Almeida L, Menezes MT, Voloch CM, Fumagalli MJ, Coletti TM, Silva CAM, Ramundo MS, Amorim MR, Hoeltgebaum HH, Mishra S, Gill MS, Carvalho LM, Buss LF, Prete Jr CA, Ashworth J, Nakaya H, Peixoto PS, Brady OJ, Nicholls SM, Tanuri A, Rossi AD, Braga CK, Gerber AL, Guimaraes APDC, Gaburo Jr N, Alencar CS, Ferreira ACS, Lima CX, Levi JE, Granato C, Ferreira GM, Francisco Jr RS, Granja F, Garcia MT, Moretti ML, Perroud Jr MW, Castineiras TMPP, Lazari CS, Hill SC, de Souza Santos AA, Simeoni CL, Forato J, Sposito AC, Schreiber AZ, Santos MNN, de Sa CZ, Souza RP, Resende-Moreira LC, Teixeira MM, Hubner J, Leme PAF, Moreira RG, Nogueira ML, Ferguson NM, Costa SF, Proenca-Modena JL, Vasconcelos ATR, Bhatt S, Lemey P, Wu C-H, Rambaut A, Loman NJ, Aguiar RS, Pybus OG, Sabino EC, Faria NR close, 2020, Evolution and epidemic spread of SARS-CoV-2 in Brazil, Science, Vol:369, ISSN:0036-8075, Pages:1255-1260
Lavezzo E, Franchin E, Ciavarella C, et al.Lavezzo E, Franchin E, Ciavarella C, Cuomo-Dannenburg G, Barzon L, Del Vecchio C, Rossi L, Manganelli R, Loregian A, Navarin N, Abate D, Sciro M, Merigliano S, De Canale E, Vanuzzo MC, Besutti V, Saluzzo F, Onelia F, Pacenti M, Parisi S, Carretta G, Donato D, Flor L, Cocchio S, Masi G, Sperduti A, Cattarino L, Salvador R, Nicoletti M, Caldart F, Castelli G, Nieddu E, Labella B, Fava L, Drigo M, Gaythorpe KAM, Imperial College COVID-19 Response Team, Brazzale AR, Toppo S, Trevisan M, Baldo V, Donnelly CA, Ferguson NM, Dorigatti I, Crisanti A close, 2020, Suppression of a SARS-CoV-2 outbreak in the Italian municipality of Vo', Nature, Vol:584, ISSN:0028-0836, Pages:425-429
Flaxman S, Mishra S, Gandy A, et al.Flaxman S, Mishra S, Gandy A, Unwin HJT, Mellan TA, Coupland H, Whittaker C, Zhu H, Berah T, Eaton JW, Monod M, Perez Guzman PN, Schmit N, Cilloni L, Ainslie K, Baguelin M, Boonyasiri A, Boyd O, Cattarino L, Cucunuba Perez Z, Cuomo-Dannenburg G, Dighe A, Djaafara A, Dorigatti I, van Elsland S, Fitzjohn R, Gaythorpe K, Geidelberg L, Grassly N, Green W, Hallett T, Hamlet A, Hinsley W, Jeffrey B, Knock E, Laydon D, Nedjati Gilani G, Nouvellet P, Parag K, Siveroni I, Thompson H, Verity R, Volz E, Walters C, Wang H, Watson O, Winskill P, Xi X, Walker P, Ghani AC, Donnelly CA, Riley SM, Vollmer MAC, Ferguson NM, Okell LC, Bhatt S close, 2020, Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe, Nature, Vol:584, ISSN:0028-0836, Pages:257-261
Okell LC, Verity R, Watson OJ, et al.Okell LC, Verity R, Watson OJ, Mishra S, Walker P, Whittaker C, Katzourakis A, Donnelly CA, Riley S, Ghani AC, Gandy A, Flaxman S, Ferguson NM, Bhatt S close, 2020, Have deaths from COVID-19 in Europe plateaued due to herd immunity?, Lancet, Vol:395, Pages:e110-e111
Walker PGT, Whittaker C, Watson OJ, et al.Walker PGT, Whittaker C, Watson OJ, Baguelin M, Winskill P, Hamlet A, Djafaara BA, Cucunubá Z, Olivera Mesa D, Green W, Thompson H, Nayagam S, Ainslie KEC, Bhatia S, Bhatt S, Boonyasiri A, Boyd O, Brazeau NF, Cattarino L, Cuomo-Dannenburg G, Dighe A, Donnelly CA, Dorigatti I, van Elsland SL, FitzJohn R, Fu H, Gaythorpe KAM, Geidelberg L, Grassly N, Haw D, Hayes S, Hinsley W, Imai N, Jorgensen D, Knock E, Laydon D, Mishra S, Nedjati-Gilani G, Okell LC, Unwin HJ, Verity R, Vollmer M, Walters CE, Wang H, Wang Y, Xi X, Lalloo DG, Ferguson NM, Ghani AC close, 2020, The impact of COVID-19 and strategies for mitigation and suppression in low- and middle-income countries, Science, Vol:369, ISSN:0036-8075, Pages:413-422
Hawryluk I, Mellan TA, Hoeltgebaum H, et al.Hawryluk I, Mellan TA, Hoeltgebaum H, Mishra S, Schnekenberg RP, Whittaker C, Zhu H, Gandy A, Donnelly CA, Flaxman S, Bhatt S close, 2020, Inference of COVID-19 epidemiological distributions from Brazilian hospital data, Journal of the Royal Society Interface, Vol:17, ISSN:1742-5662, Pages:20200596-20200596
Hawryluk I, Mishra S, Flaxman S, et al.Hawryluk I, Mishra S, Flaxman S, Bhatt S, Mellan TA close, Referenced Thermodynamic Integration for Bayesian Model Selection: Application to COVID-19 Model Selection
Rizoiu M-A, Lee Y, Mishra S, et al.Rizoiu M-A, Lee Y, Mishra S, Xie L close, A Tutorial on Hawkes Processes for Events in Social Media
Mishra S, Rizoiu M-A, Xie L, Modeling Popularity in Asynchronous Social Media Streams with Recurrent Neural Networks
Mishra S, Flaxman S, Berah T, et al.Mishra S, Flaxman S, Berah T, Pakkanen M, Zhu H, Bhatt S close, $π$VAE: Encoding stochastic process priors with variational autoencoders
Mishra S, Berah T, Mellan TA, et al.Mishra S, Berah T, Mellan TA, Unwin HJT, Vollmer MA, Parag KV, Gandy A, Flaxman S, Bhatt S close, On the derivation of the renewal equation from an age-dependent branching process: an epidemic modelling perspective
Bhatt S, Ferguson N, Flaxman S, et al.Bhatt S, Ferguson N, Flaxman S, Gandy A, Mishra S, Scott JA close, Semi-Mechanistic Bayesian Modeling of COVID-19 with Renewal Processes
Hawryluk I, Hoeltgebaum H, Mishra S, et al.Hawryluk I, Hoeltgebaum H, Mishra S, Miscouridou X, Schnekenberg RP, Whittaker C, Vollmer M, Flaxman S, Bhatt S, Mellan TA close, Gaussian Process Nowcasting: Application to COVID-19 Mortality Reporting
Chapters
Rizoiu M-A, Lee Y, Mishra S, 2017, Hawkes processes for events in social media, Frontiers of Multimedia Research, ACM, Pages:191-218
Conference
Mishra S, 2019, Bridging Models for Popularity Prediction on Social Media, 12th ACM International Conference on Web Search and Data Mining (WSDM), ASSOC COMPUTING MACHINERY, Pages:810-811
Rizoiu M-A, Mishra S, Kong Q, et al.Rizoiu M-A, Mishra S, Kong Q, Carman M, Xie L close, 2018, SIR-Hawkes: Linking Epidemic Models and Hawkes Processes to Model Diffusions in Finite Populations, 27th World Wide Web (WWW) Conference, ASSOC COMPUTING MACHINERY, Pages:419-428
Mishra S, Rizoiu M-A, Xie L, 2016, Feature Driven and Point Process Approaches for Popularity Prediction, 25th ACM International Conference on Information and Knowledge Management (CIKM), ASSOC COMPUTING MACHINERY, Pages:1069-1078
Buntine WL, Mishra S, 2014, Experiments with Non-parametric Topic Models, 20th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), ASSOC COMPUTING MACHINERY, Pages:881-890
Reports
Mellan T, Hoeltgebaum H, Mishra S, et al.Mellan T, Hoeltgebaum H, Mishra S, Whittaker C, Schnekenberg R, Gandy A, Unwin H, Vollmer M, Coupland H, Hawryluk I, Rodrigues Faria N, Vesga J, Zhu H, Hutchinson M, Ratmann O, Monod M, Ainslie K, Baguelin M, Bhatia S, Boonyasiri A, Brazeau N, Charles G, Cooper L, Cucunuba Perez Z, Cuomo-Dannenburg G, Dighe A, Djaafara A, Eaton J, van Elsland S, Fitzjohn R, Fraser K, Gaythorpe K, Green W, Hayes S, Imai N, Jeffrey B, Knock E, Laydon D, Lees J, Mangal T, Mousa A, Nedjati Gilani G, Nouvellet P, Olivera Mesa D, Parag K, Pickles M, Thompson H, Verity R, Walters C, Wang H, Wang Y, Watson O, Whittles L, Xi X, Okell L, Dorigatti I, Walker P, Ghani A, Riley S, Ferguson N, Donnelly C, Flaxman S, Bhatt S close, 2020, Report 21: Estimating COVID-19 cases and reproduction number in Brazil
Vollmer M, Mishra S, Unwin H, et al.Vollmer M, Mishra S, Unwin H, Gandy A, Melan T, Bradley V, Zhu H, Coupland H, Hawryluk I, Hutchinson M, Ratmann O, Monod M, Walker P, Whittaker C, Cattarino L, Ciavarella C, Cilloni L, Ainslie K, Baguelin M, Bhatia S, Boonyasiri A, Brazeau N, Charles G, Cooper L, Cucunuba Perez Z, Cuomo-Dannenburg G, Dighe A, Djaafara A, Eaton J, van Elsland S, Fitzjohn R, Gaythorpe K, Green W, Hayes S, Imai N, Jeffrey B, Knock E, Laydon D, Lees J, Mangal T, Mousa A, Nedjati Gilani G, Nouvellet P, Olivera Mesa D, Parag K, Pickles M, Thompson H, Verity R, Walters C, Wang H, Wang Y, Watson O, Whittles L, Xi X, Ghani A, Riley S, Okell L, Donnelly C, Ferguson N, Dorigatti I, Flaxman S, Bhatt S close, 2020, Report 20: A sub-national analysis of the rate of transmission of Covid-19 in Italy
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