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The Zeeman Institute

The Zeeman Institute

About Us

The Zeeman Institute for Systems Biology & Infectious Disease Epidemiology Research (SBIDER) specialises in bringing sophisticated mathematics to challenges in biological sciences. Our research spans from the theoretical to practical policy advice, and from the genome to the population. We are a team of around 20 staff from across campus with individuals based in Maths, Stats, Computer Science, Life Sciences and Medicine.

At the core of our research is a desire to better understand and predict the biological world.

News

Publications (2022).

Touloupou, P ; Retkute, R ; Hollingsworth, TD ; Spencer, SEF (2022) Statistical methods for linking geostatistical maps and transmission models: Application to lymphatic filariasis in East Africa. SPATIAL AND SPATIO-TEMPORAL EPIDEMIOLOGY 41 100391

Prosser, NS ; Green, MJ; Ferguson, E; Tildesley, MJ; Hill, EM; Keeling, MJ ; Kaler, J (2022) Cattle farmer psychosocial profiles and their association with control strategies for bovine viral diarrhea. JOURNAL OF DAIRY SCIENCE 105 3559-3573

Geerts, M; Van Reet, N; Leyten, S; Berghmans, R; Rock, KS; Coetzer, THT; Eyssen, LEA; Buscher, P (2022) Trypanosoma brucei gambiense-iELISA: A Promising New Test for the Post-Elimination Monitoring of Human African Trypanosomiasis. CLINICAL INFECTIOUS DISEASES 73 E2477-E2483

Mendonca, PRF; Tagliatti, E; Langley, H; Kotzadimitriou, D; Zamora-Chimal, CG; Timofeeva, Y; Volynski, K (2022) Asynchronous glutamate release is enhanced in low release efficacy synapses and dispersed across the active zone, NATURE COMMUNICATIONS 13: 3497.

Kumar, V; Siddiqui, NA; Pollington, TM; Mandal, R; Das, S; Kesari, S; Das, VR; Pandey, K; Hollingsworth, TD; Chapman, LAC; Das, P (2022) Impact of intensified control on visceral leishmaniasis in a highly-endemic district of Bihar, India: an interrupted time series analysis EPIDEMICS 39 100562

Saez, M; Briscoe, J; Rand, DA (2022) Dynamical landscapes of cell fate decisions INTERFACE FOCUS 12 20220002

Wang, L;,Didelot, X; Bi, YH ; Gao, GF (2022) SARS-CoV-2 transmissibility compared between variants of concern and vaccination status. BRIEFINGS IN BIOINFORMATICS. 23 10.1093/bib/bbab594

Kretzschmar, ME et al (2022) Challenges for modelling interventions for future pandemics. Epidemics. 38 10.1016/j.epidem.2022.100546

Lozano, DCP; Jones, HE; Gavard, R; Thomas, MJ; Ramirez, CX; Wootton, CA; Chaparro, JAS; O'Connor, PB; Spencer, SEF; Rossell, D; Mejia-Ospino, E; Witt, M; Barrow, MP (2022) Revealing the Reactivity of Individual Chemical Entities in Complex Mixtures: the Chemistry Behind Bio-Oil Upgrading ANALYTICAL CHEMISTRY 94 7536-7544

Fairbanks, EL; Baylis, M; Daly, JM; Tildesley, MJ (2022) Inference for a spatio-temporal model with partial spatial data: African horse sickness virus in Morocco EPIDEMICS 39 100566

Introini, V; Marin-Menendez, A; Nettesheim, G; Lin, YC; Kariuki, SN; Smith, AL; Jean, L; Brewin, JN; Rees, DC; Cicuta, P; Rayner, JC; Penman, BS (2022) The erythrocyte membrane properties of beta thalassaemia heterozygotes and their consequences for Plasmodium falciparum invasion SCIENTIFIC REPORTS 12 8934

Harrison, JU; Sen, O; McAinsh, AD; Burroughs, NJ (2022) Kinetochore tracking in 3D from lattice light-sheet imaging data with KiT. BIOINFORMATICS 10.1093/bioinformatics/btac330

Parag, KV; Thompson, RN and Donnelly, CA (2022) Are epidemic growth rates more informative than reproduction numbers? J. Roy. Stat. Soc. A. (Early Access)

Keeling, MJ; Moore, SE (2022) An assessment of the vaccination of school-aged children in England against SARS-CoV-2 BMC MEDICINE 20 196

Ledda, A; Cummins, M; Shaw, LP; Jauneikaite, E; Cole, K; Lasalle, F; Barry, D; Turton, J; Rosmarin, C; Anaraki, S; Wareham, D; Stoesser, N; Paul, J; Manuel, R; Cherian, BP; Didelot, X (2022) Hospital outbreak of carbapenem- resistant Enterobacterales associated with a bla( OXA-48) plasmid carried mostly by Escherichia coli ST399 MICROBIAL GENOMICS 8 675

Lipecki, J; Mitchell, AE; Muter, J; Lucas, ES; Makwana, K; Fishwick, K; Odendaal, J; Hawkes, A; Vrljicak, P; Brosens, JJ; Ott, S (2022) EndoTime: non-categorical timing estimates for luteal endometrium HUMAN REPRODUCTION 37 747-761

Huang, CI; Crump, RE; Brown, PE; Spencer, SEF; Miaka, EM; Shampa, C; Keeling, MJ; Rock, KS (2022) Identifying regions for enhanced control of gambiense sleeping sickness in the Democratic Republic of Congo NATURE COMMUNICATIONS 13 1448

Leng, T; Hill, EM; Holmes, A; Southall, E; Thompson, RN; Tildesley, MJ; Keeling, MJ; Dyson, L (2022) Quantifying pupil-to-pupil SARS-CoV-2 transmission and the impact of lateral flow testing in English secondary schools NATURE COMMUNICATIONS 13 1106

Avalos-Pacheco, A; Rossell, D; Savage, RS (2022) Heterogeneous Large Datasets Integration Using Bayesian Factor Regression BAYESIAN ANALYSIS 17 33-66

Antillon, M; Huang, CI; Crump, RE; Brown, PE; Snijders, R; Miaka, EM; Keeling, MJ; Rock, KS; Tediosi, F (2022) Cost-effectiveness of sleeping sickness elimination campaigns in five settings of the Democratic Republic of Congo NATURE COMMUNICATIONS 13 1051

Lovell-Read, FA; Shen, S; Thompson, RN (2022) Estimating local outbreak risks and the effects of non-pharmaceutical interventions in age-structured populations: SARS-CoV-2 as a case study JOURNAL OF THEORETICAL BIOLOGY 535 110983

Lambisia, AW; Mohammed, KS; Makori, TO; Ndwiga, L; Mburu, MW; Morobe, JM; Moraa, EO; Musyoki, J; Murunga, N; Mwangi, JN; Nokes, DJ; Agoti, CN; Ochola-Oyier, LI; Githinji, G (2022) Optimization of the SARS-CoV-2 ARTIC Network V4 Primers and Whole Genome Sequencing Protocol FRONTIERS IN MEDICINE 9 836728

Singer, BJ; Thompson, RN; Bonsall, MB (2022) Evaluating strategies for spatial allocation of vaccines based on risk and centrality JOURNAL OF THE ROYAL SOCIETY INTERFACE 19 20210709

Hart, WS; Abbott, S; Endo, A; Hellewell, J; Miller, E; Andrews, N; Maini, PK; Funk, S; Thompson, RN (2022) Inference of the SARS-CoV-2 generation time using UK household data ELIFE 11 e70767

Holmes, A; Tildesley, M; Dyson, L (2022) Approximating steady state distributions for household structured epidemic models JOURNAL OF THEORETICAL BIOLOGY 534 110974

Fountain-Jones, NM et al. (2022) Hunting alters viral transmission and evolution in a large carnivore NATURE ECOLOGY & EVOLUTION 6 174

Rock, KS; Huang, CI; Crump, RE; Bessell, PR; Brown, PE; Tirados, I; Solano, P; Antillon, M; Picado, A; Mbainda, S; Darnas, J; Crowley, EH; Torr, SJ; Peka, M (2022) Update of transmission modelling and projections of gambiense human African trypanosomiasis in the Mandoul focus, Chad INFECTIOUS DISEASES OF POVERTY 11 11

Phan, MVT; Agoti, CN; Munywoki, PK; Otieno, GP; Ngama, M; Kellam, P; Cotten, M; Nokes, DJ (2022) Identification of missed viruses by metagenomic sequencing of clinical respiratory samples from Kenya SCIENTIFIC REPORTS 12 202

Larsen, J et al. (2022) Emergence of methicillin resistance predates the clinical use of antibiotics NATURE 602 135

Altmeyer, R; Bretschneider, T; Janak, J; Reiss, M (2022) Parameter Estimation in an SPDE Model for Cell Repolarization SIAM-ASA JOURNAL ON UNCERTAINTY QUANTIFICATION 10 179-199

Pratt, HG; Steinberger, KJ; Mihalik, NE; Ott, S; Whalley, T; Szomolay, B; Boone, BA; Eubank, TD (2022) Macrophage and Neutrophil Interactions in the Pancreatic Tumor Microenvironment Drive the Pathogenesis of Pancreatic Cancer CANCERS 14 194

Willen, L; Milton, P; Hamley, JID; Walker, M; Osei-Atweneboana, M; Volf, P; Basanez, MG; Courtenay, O (2022) Demographic patterns of human antibody levels to Simulium damnosum s.l. saliva in onchocerciasis-endemic areas: An indicator of exposure to vector bites PLOS NEGLECTED TROPICAL DISEASES 16 e0010108

Auguste, PE; Mistry, H; McCarthy, ND; Sutcliffe, PA; Clarke, AE (2022) Cost-effectiveness of testing for latent tuberculosis infection in people with HIV AIDS 36 1-9

Wangui, J; Nokes, DJ; Mobegi, VA; Otieno, JR; Agoti, CN; Ngeranwa, JJN; Bulimo, WD (2022) Spatial-temporal distribution and sequence diversity of group a human respiratory syncytial viruses in Kenya preceding the emergence of ON1 genotype INFLUENZA AND OTHER RESPIRATORY VIRUSES 16 501-510

Kumar, V; Siddiqui, NA; Pollington, TM; Mandal, R; Das, S; Kesari, S; Das, VR; Pandey, K; Hollingsworth, TD; Chapman, LAC; Das, P (2022) Impact of intensified control on visceral leishmaniasis in a highly-endemic district of Bihar, India: an interrupted time series analysis EPIDEMICS 39 100562

Avalos-Pacheco, A; Rossell, D; Savage, RS (2022) Heterogeneous Large Datasets Integration Using Bayesian Factor Regression BAYESIAN ANALYSIS 17 33-66