Dr Paul Johnson

Senior Lecturer (Evolution & Diversity)

telephone: 01413302803
email: Paul.Johnson@glasgow.ac.uk

Room 362, Institute of Biodiversity (IBAHCM), Wolfson Link Building, Glasgow, G12 8QQ

Biography

I am a statistician, modeller and geneticist with interests in developing and applying statistical methods across fields ranging from population genetics to ecology to veterinary and human epidemiology. I have worked on research projects in both academic and consultancy settings. I am involved in several international multi-disciplinary collaborations researching zoonotic and tropical diseases including rabies, Rift Valley fever, and malaria. I also have extensive experience of using computer simulation to improve study design, analysis of genetic association studies, modelling genotyping errors, and developing methods for estimating R² from generalised linear mixed-effects models (GLMMs).

Research interests

As a statistician I collaborate on a wide range of research projects (see my publications). Below is a selection of the projects I've worked on over the past decade.

Selected applied research areas

NERC Highlight Topic: Identifying inter-epizootic transmission routes of Rift Valley fever virus in Tanzania to inform targeted control strategies for outbreak response. This project is a collaboration with Jennie Lord in Liverpool and Jess Clark and Sarah Cleaveland in Glasgow.
SEEDZ: Social, Economic and Environmental Drivers of Zoonoses Livestock, Livelihoods and Health. My role on the project is to model zoonosis transmission in Northern Tanzania (SEEDZ modelling PIs: Rowland Kao & Louise Matthews)
Epi-SEQ: Molecular epidemiology of epizootic diseases using next generation sequencing technology (Glasgow PI: Dan Haydon).
AvecNet (African Vector Control: New Tools), a collaborative project between African and European Researchers to develop and evaluate new tools for malaria control in Africa (Glasgow PI: Heather Ferguson).
Investigating the role of HLA alleles in causing Hodgkin lymphoma (PI: Ruth Jarrett).

Methodological research

Helping to design experiments for the AvecNet project got me interested in using simulations to do power analysis for generalised linear mixed models (GLMMs). The resulting paper and tutorial can be found here. I've made the simulation function, plus some R functions for assessing the fit of GLMMs, available in an R package, GLMMmisc.
I published a note showing how to account for random slopes when estimating R² for GLMMs, based on Nakagawa & Schielzeth's R²_GLMM method. This method has been incorporated into the piecewiseSEM and MuMIn R packages, and featured in this blog post. I recently contributed to further extending Nakagawa & Schielzeth's R²_GLMM to a wider range of GLMMs.
In collaboration with Dan Haydon I wrote Pedant, a program for estimating microsatellite genotyping error rates.

Software

Pedant, a program for estimating microsatellite genotyping error rates.
GLMMmisc, an R package with various useful functions for GLMMs.
My GitHub.

Research groups

Publications

Selected publications

Johnson, P. C. D. , Hägglund, S., Näslund, K., Meyer, G., Taylor, G., Orton, R. J. , Zohari, S., Haydon, D. T. and Valarcher, J. F. (2022) Evaluating the potential of whole-genome sequencing for tracing transmission routes in experimental infections and natural outbreaks of bovine respiratory syncytial virus. Veterinary Research, 53, 107. (doi: 10.1186/s13567-022-01127-9) (PMID:36510312) (PMCID:PMC9746130)

Chaters, G.L. et al. (2019) Analysing livestock network data for infectious disease control: an argument for routine data collection in emerging economies. Philosophical Transactions of the Royal Society B: Biological Sciences, 374(1776), 20180264. (doi: 10.1098/rstb.2018.0264) (PMID:31104601) (PMCID:PMC6558568)

Nakagawa, S., Johnson, P. C.D. and Schielzeth, H. (2017) The coefficient of determination R2 and intra-class correlation coefficient from generalized linear mixed-effects models revisited and expanded. Journal of the Royal Society: Interface, 14(134), 20170213. (doi: 10.1098/rsif.2017.0213) (PMID:28904005) (PMCID:PMC5636267)

Johnson, P. C. D. , Barry, S. J. E. , Ferguson, H. M. and Müller, P. (2015) Power analysis for generalized linear mixed models in ecology and evolution. Methods in Ecology and Evolution, 6(2), pp. 133-142. (doi: 10.1111/2041-210X.12306) (PMID:25893088) (PMCID:PMC4394709)

Johnson, P. C.D. (2014) Extension of Nakagawa & Schielzeth's R2GLMM to random slopes models. Methods in Ecology and Evolution, 5(9), pp. 944-946. (doi: 10.1111/2041-210X.12225) (PMID:25810896) (PMCID:PMC4368045)

Johnson, P. C.D. and Haydon, D. T. (2007) Maximum-likelihood estimation of allelic dropout and false allele error rates from microsatellite genotypes in the absence of reference data. Genetics, 175(2), pp. 827-842. (doi: 10.1534/genetics.106.064618) (PMID:17179070) (PMCID:PMC1800638)

All publications

List by: Type | Date

Jump to: 2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2003 | 2002 | 2001 | 2000

Number of items: 100.

2024

Adamson, W. E. et al. (2024) Phenome-wide analysis reveals epistatic associations between APOL1 variants and chronic kidney disease and multiple other disorders. EBioMedicine, 101, 105000. (doi: 10.1016/j.ebiom.2024.105000) (PMID:38360481) (PMCID:PMC10944146)

2023

Govella, N., Johnson, P. C.D. , Killeen, G. F. and Ferguson, H. M. (2023) Heritability of biting time behaviours in the major African malaria vector Anopheles arabiensis. Malaria Journal, 22, 238. (doi: 10.1186/s12936-023-04671-7) (PMID:37587487) (PMCID:PMC10433675)

Huang, Y., Jonsson, N. N. , McLaughlin, M. , Burchmore, R. , Johnson, P. C.D. , Jones, R. , McGill, S., Brady, N., Weidt, S. and Eckersall, D. (2023) Quantitative TMT-based proteomics revealing host, dietary and microbial proteins in bovine faeces including barley serpin Z4, a prominent component in the head of beer. Journal of Proteomics, 285, 104941. (doi: 10.1016/j.jprot.2023.104941) (PMID:37285906)

Sulaimon, T. A., Chaters, G. L., Nyasebwa, O. M., Swai, E. S., Cleaveland, S. , Enright, J. , Kao, R. R. and Johnson, P. C.D. (2023) Modeling the effectiveness of targeting Rift Valley fever virus vaccination using imperfect network information. Frontiers in Veterinary Science, 10, 1049633. (doi: 10.3389/fvets.2023.1049633) (PMID:37456963) (PMCID:PMC10340087)

Lushasi, K. et al. (2023) Integrating contact tracing and whole-genome sequencing to track the elimination of dog-mediated rabies: an observational and genomic study. eLife, 12, e85262. (doi: 10.7554/elife.85262) (PMID:37227428) (PMCID:PMC10299823)

Nati, J. J.H., Halsey, L. G., Johnson, P. C.D. , Lindström, J. and Killen, S. S. (2023) Does aerobic scope influence geographical distribution of teleost fishes? Conservation Physiology, 11(1), coad012. (doi: 10.1093/conphys/coad012) (PMID:37006338) (PMCID:PMC10061159)

2022

Atim, S. A. et al. (2022) Risk factors for Crimean-Congo Haemorrhagic Fever (CCHF) virus exposure in farming communities in Uganda. Journal of Infection, 85(6), pp. 693-701. (doi: 10.1016/j.jinf.2022.09.007) (PMID:36108783) (PMCID:PMC9731351)

Duamor, C. T., Lankester, F. F., Mpolya, E. A., Ferguson, E. A. , Johnson, P. C. , Wyke, S. , Cleaveland, S. , Hampson, K. and Kreppel, K. A. (2022) Participation in mass dog vaccination campaigns in Tanzania: Benefits of community and public engagement. Frontiers in Public Health, 10, 971967. (doi: 10.3389/fpubh.2022.971967) (PMID:36311637) (PMCID:PMC9616113)

de Glanville, W. A. et al. (2022) Inter-epidemic Rift Valley fever virus infection incidence and risks for zoonotic spillover in northern Tanzania. PLoS Neglected Tropical Diseases, 16(10), e0010871. (doi: 10.1371/journal.pntd.0010871) (PMID:36306281) (PMCID:PMC9665400)

Attractive Targeted Sugar Bait Phase III Trial Group, et al. (2022) Attractive targeted sugar bait phase III trials in Kenya, Mali, and Zambia. Trials, 23, 640. (doi: 10.1186/s13063-022-06555-8) (PMID:35945599) (PMCID:PMC9361277)

Huang, Y., Jones, R., Compiani, R., Grossi, S., Johnson, P.C.D. , Eckersall, P.D. , Sgoifo Rossi, C.A. and Jonsson, N.N. (2022) Effects of ammonia-treated maize on growth performance of beef cattle. Animal Feed Science and Technology, 290, 115350. (doi: 10.1016/j.anifeedsci.2022.115350)

Aminu, O. R. et al. (2022) Participatory mapping identifies risk areas and environmental predictors of endemic anthrax in rural Africa. Scientific Reports, 12, 10514. (doi: 10.1038/s41598-022-14081-5) (PMID:35732674) (PMCID:PMC9217952)

Huang, Y., Burchmore, R. , Jonsson, N. N. , Johnson, P. C.D. and Eckersall, P. D. (2022) Technical report: In-gel sample preparation prior to proteomic analysis of bovine faeces increases protein identifications by removal of high molecular weight glycoproteins. Journal of Proteomics, 261, 104573. (doi: 10.1016/j.jprot.2022.104573) (PMID:35351658)

Lugelo, A., Hampson, K. , Ferguson, E. A. , Czupryna, A. , Bigambo, M., Duamor, C. T., Kazwala, R., Johnson, P. C.D. and Lankester, F. (2022) Development of dog vaccination strategies to maintain herd immunity against rabies. Viruses, 14(4), 830. (doi: 10.3390/v14040830) (PMID:35458560) (PMCID:PMC9028497)

Siria, D. J. et al. (2022) Rapid age-grading and species identification of natural mosquitoes for malaria surveillance. Nature Communications, 13, 1501. (doi: 10.1038/s41467-022-28980-8) (PMID:35314683) (PMCID:PMC8938457)

Sambo, M. et al. (2022) Scaling-up the delivery of dog vaccination campaigns against rabies in Tanzania. PLoS Neglected Tropical Diseases, 16(2), e0010124. (doi: 10.1371/journal.pntd.0010124) (PMID:35143490) (PMCID:PMC8865671)

2021

Shaw, A. E. et al. (2021) The antiviral state has shaped the CpG composition of the vertebrate interferome to avoid self-targeting. PLoS Biology, 19(9), e3001352. (doi: 10.1371/journal.pbio.3001352) (PMID:34491982) (PMCID:PMC8423302)

Millins, C. et al. (2021) Emergence of Lyme disease on treeless islands in Scotland, UK. Emerging Infectious Diseases, 27(2), pp. 538-546. (doi: 10.3201/eid2702.203862) (PMID:33496237) (PMCID:PMC7853560)

Lagou, V. et al. (2021) Sex-dimorphic genetic effects and novel loci for fasting glucose and insulin variability. Nature Communications, 12, 24. (doi: 10.1038/s41467-020-19366-9) (PMID:33402679) (PMCID:PMC7785747)

Mancini, M. V., Ant, T. H., Herd, C. S., Martinez, J. , Murdochy, S. M., Gingell, D. D., Mararo, E., Johnson, P. C. D. and Sinkins, S. (2021) High temperature cycles result in maternal transmission and dengue infection differences between Wolbachia strains in Aedes aegypti. mBio, 12(6), e00250-21. (doi: 10.1128/mBio.00250-21) (PMCID:PMC8576525)

2020

de Glanville, W. A. et al. (2020) Classification and characterisation of livestock production systems in northern Tanzania. PLoS ONE, 15(12), e0229478. (doi: 10.1371/journal.pone.0229478) (PMID:33378382) (PMCID:PMC7773236)

Rysava, K. et al. (2020) Towards the elimination of dog-mediated rabies: development and application of an evidence-based management tool. BMC Infectious Diseases, 20, 778. (doi: 10.1186/s12879-020-05457-x) (PMID:33081712) (PMCID:PMC7574347)

Kreppel, K.S., Viana, M. , Main, B.J., Johnson, P.C.D. , Govella, N.J., Lee, Y., Maliti, D., Meza, F.C., Lanzaro, G.C. and Ferguson, H.M. (2020) Emergence of behavioural avoidance strategies of malaria vectors in areas of high LLIN coverage in Tanzania. Scientific Reports, 10, 14527. (doi: 10.1038/s41598-020-71187-4) (PMID:32883976) (PMCID:PMC7471940)

Nickbakhsh, S. , Mair, C. , Matthews, L. , Reeve, R. , Johnson, P.C.D. , Thorburn, F., Von Wissmann, B., McMenamin, J., Gunson, R.N. and Murcia, P.R. (2020) Reply to Kloepfer and Gern: Independent studies suggest an arms race between influenza and rhinovirus: what next? Proceedings of the National Academy of Sciences of the United States of America, 117(13), pp. 6988-6989. (doi: 10.1073/pnas.2000903117) (PMID:32127475) (PMCID:PMC7132304)

2019

Nickbakhsh, S. et al. (2019) Virus-virus interactions impact the population dynamics of influenza and the common cold. Proceedings of the National Academy of Sciences of the United States of America, 116(52), pp. 27142-27150. (doi: 10.1073/pnas.1911083116) (PMID:31843887) (PMCID:PMC6936719)

2018

Millins, C. et al. (2018) Landscape structure affects the prevalence and distribution of a tick-borne zoonotic pathogen. Parasites and Vectors, 11, 621. (doi: 10.1186/s13071-018-3200-2) (PMID:30514350) (PMCID:PMC6278045)

Sambo, M., Hampson, K. , Changalucha, J., Cleaveland, S. , Lembo, T. , Lushasi, K., Mbunda, E., Mtema, Z., Sikana, L. and Johnson, P. C.D. (2018) Estimating the size of dog populations in Tanzania to inform rabies control. Veterinary Sciences, 5(3), 77. (doi: 10.3390/vetsci5030077) (PMID:30205470) (PMCID:PMC6164483)

2017

Sambo, M. et al. (2017) Comparing methods of assessing dog rabies vaccination coverage in rural and urban communities in Tanzania. Frontiers in Veterinary Science, 4, 33. (doi: 10.3389/fvets.2017.00033) (PMID:28352630) (PMCID:PMC5348529)

2016

Millins, C. , Gilbert, L., Johnson, P. , James, M., Kilbride, E., Birtles, R. and Biek, R. (2016) Heterogeneity in the abundance and distribution of Ixodes ricinus and Borrelia burgdorferi (sensu lato) in Scotland: implications for risk prediction. Parasites and Vectors, 9, 595. (doi: 10.1186/s13071-016-1875-9) (PMID:27876087) (PMCID:PMC5084683)

Maliti, D. V., Govella, N. J., Killeen, G. F., Mirzai, N., Johnson, P. C.D. , Kreppel, K. and Ferguson, H. M. (2016) Erratum to: Development and evaluation of mosquito-electrocuting traps as alternatives to the human landing catch technique for sampling host-seeking malaria vectors. Malaria Journal, 15, 558. (doi: 10.1186/s12936-016-1562-5) (PMID:27846883) (PMCID:PMC5111336)

Govella, N. J., Maliti, D. F., Mlwale, A. T., Massallu, J. P., Mirzai, N., Johnson, P. C.D. , Ferguson, H. M. and Killeen, G. F. (2016) An improved mosquito electrocuting trap that safely reproduces epidemiologically relevant metrics of mosquito human-feeding behaviours as determined by human landing catch. Malaria Journal, 15, 465. (doi: 10.1186/s12936-016-1513-1)

Melville, C. A. , Johnson, P. C. D. , Smiley, E., Simpson, N., Purves, D., McConnachie, A. and Cooper, S.-A. (2016) Problem behaviours and symptom dimensions of psychiatric disorders in adults with intellectual disabilities: An exploratory and confirmatory factor analysis. Research in Developmental Disabilities, 55, pp. 1-13. (doi: 10.1016/j.ridd.2016.03.007) (PMID:27018744)

Melville, C.A. , Johnson, P.C.D. , Smiley, E., Simpson, N., McConnachie, A. , Purves, D., Osugo, M. and Cooper, S.-A. (2016) Statistical modelling studies examining the dimensional structure of psychopathology experienced by adults with intellectual disabilities: Systematic review. Research in Developmental Disabilities, 53-54, pp. 1-10. (doi: 10.1016/j.ridd.2016.01.018) (PMID:26852278)

Reynolds, A., Lindstrom, J. , Johnson, P. C.D. and Mable, B. K. (2016) Evolution of drug-tolerant nematode populations in response to density reduction. Evolutionary Applications, 9(5), pp. 726-738. (doi: 10.1111/eva.12376) (PMID:27247622) (PMCID:PMC4869413)

Clarke, A. T., Johnson, P. C.D. , Hall, G. C., Ford, I. and Mills, P. (2016) High dose atorvastatin associated with increased risk of significant hepatotoxicity in comparison to simvastatin in UK GPRD cohort. PLoS ONE, 11(3), e0151587. (doi: 10.1371/journal.pone.0151587) (PMID:26983033) (PMCID:PMC4794178)

Trewby, H. et al. (2016) Use of bacterial whole-genome sequencing to investigate local persistence and spread in bovine tuberculosis. Epidemics, 14, pp. 26-35. (doi: 10.1016/j.epidem.2015.08.003) (PMID:26972511) (PMCID:PMC4773590)

Hammer, S. , Nager, R.G. , Johnson, P.C.D. , Furness, R.W. and Provencher, J.F. (2016) Plastic debris in great skua (Stercorarius skua) pellets corresponds to seabird prey species. Marine Pollution Bulletin, 103(1-2), pp. 206-210. (doi: 10.1016/j.marpolbul.2015.12.018) (PMID:26763326)

Davies, G.M., Domenech-Jardi, R., Gray, A. and Johnson, P.C.D. (2016) Vegetation structure and fire weather influence variation in burn severity and fuel consumption during peatland wildfires. Biogeosciences, 13(2), pp. 389-398. (doi: 10.5194/bg-13-389-2016)

2015

Dridi, M., Lecollinet, S., Orton, R. , Johnson, P. , Rosseel, T., van Borm, S., Lambrecht, B. and Muylkens, B. (2015) Next generation sequencing shows West Nile virus quasispecies diversification after a single passage in a carrion crow (Corvus corone) in vivo infection model. Journal of General Virology, 96, p. 2999. (doi: 10.1099/jgv.0.000231) (PMID:26297666)

Johnson, P. C.D. et al. (2015) Modeling HLA associations with EBV-positive and -negative Hodgkin lymphoma suggests distinct mechanisms in disease pathogenesis. International Journal of Cancer, 137(5), pp. 1066-1075. (doi: 10.1002/ijc.29467) (PMID:25648508) (PMCID:PMC4737225)

Shungin, D. et al. (2015) New genetic loci link adipose and insulin biology to body fat distribution. Nature, 518(7538), pp. 187-196. (doi: 10.1038/nature14132) (PMID:25673412) (PMCID:PMC4338562)

Wade, K. H. et al. (2015) Variation in the SLC23A1 gene does not influence cardiometabolic outcomes to the extent expected given its association with L-ascorbic acid. American Journal of Clinical Nutrition, 101(1), pp. 202-209. (doi: 10.3945/ajcn.114.092981) (PMID:25527764) (PMCID:PMC4266888)

Swerdlow, D. I. et al. (2015) HMG-coenzyme A reductase inhibition, type 2 diabetes, and bodyweight: evidence from genetic analysis and randomised trials. Lancet, 385(9965), pp. 351-361. (doi: 10.1016/S0140-6736(14)61183-1) (PMID:25262344) (PMCID:PMC4322187)

Kreppel, K.S., Johnson, P.C.D. , Govella, N.J., Pombi, M., Maliti, D. and Ferguson, H.M. (2015) Comparative evaluation of the sticky-resting-box-trap, the standardised resting-bucket-trap and indoor aspiration for sampling malaria vectors. Parasites and Vectors, 8, 462. (doi: 10.1186/s13071-015-1066-0) (PMID:26383620) (PMCID:PMC4573490)

Locke, A. E. et al. (2015) Genetic studies of body mass index yield new insights for obesity biology. Nature, 518(7538), pp. 197-206. (doi: 10.1038/nature14177) (PMID:25673413) (PMCID:PMC4382211)

Mair, C. , Stear, M., Johnson, P. , Denwood, M., Jimenez de Cisneros, J. P., Stefan, T. and Matthews, L. (2015) A Bayesian generalized random regression model for estimating heritability using overdispersed count data. Genetics Selection Evolution, 47, 51. (doi: 10.1186/s12711-015-0125-5) (PMID:26092676) (PMCID:PMC4473853)

Maliti, D., Govella, N., Killeen, G., Mirzai, N., Johnson, P. C.D. , Kreppel, K. and Ferguson, H. M. (2015) Development and evaluation of mosquito-electrocuting traps as alternatives to the human landing catch technique for sampling host-seeking malaria vectors. Malaria Journal, 14, 502. (doi: 10.1186/s12936-015-1025-4) (PMID:26670881) (PMCID:PMC4681165)

2014

Thomson, R. M. , Allely, C., Purves, D., Puckering, C., McConnachie, A. , Johnson, P. C.D., Golding, J., Gillberg, C. and Wilson, P. (2014) Predictors of positive and negative parenting behaviours: evidence from the ALSPAC cohort. BMC Pediatrics, 14, 247. (doi: 10.1186/1471-2431-14-247) (PMID:25280577) (PMCID:PMC4287514)

Ngufor, C., Chouaïbou, M., Tchicaya, E., Loukou, B., Kesse, N., N’Guessan, R., Johnson, P. , Koudou, B. and Rowland, M. (2014) Combining organophosphate-treated wall linings and long-lasting insecticidal nets fails to provide additional control over long-lasting insecticidal nets alone against multiple insecticide-resistant Anopheles gambiae in Côte d’Ivoire: an experimental hut trial. Malaria Journal, 13, 396. (doi: 10.1186/1475-2875-13-396) (PMID:25301219) (PMCID:PMC4203900)

Puckering, C. et al. (2014) Association between parent-infant interactions in infancy and disruptive behaviour disorders at age seven: a nested, case-control ALSPAC study. BMC Pediatrics, 14, 223. (doi: 10.1186/1471-2431-14-223) (PMID:25193601) (PMCID:PMC4177234)

Postmus, I. et al. (2014) In search for genetic determinants of clinically meaningful differential cardiovascular event reduction by pravastatin in the PHArmacogenetic study of Statins in the Elderly at risk (PHASE)/PROSPER study. Atherosclerosis, 235(1), pp. 58-64. (doi: 10.1016/j.atherosclerosis.2014.04.009)

de Wet, C., O'Donnell, C. , Johnson, P. and Bowie, P. (2014) Measuring harm. In: Bowie, P. and de Wet, C. (eds.) Safety and Improvement in Primary Care: The Essential Guide. Radcliffe Publishing: London, pp. 40-47. ISBN 9781846195808

Johnson, P.C.D. , Ahamat, B., McConnachie, A. , Puckering, C., Marwick, H., Furnivall, D., Marwick, R., Gillberg, C. , Heron, J. and Wilson, P. (2014) Motor activity at age one year does not predict ADHD at seven years. International Journal of Methods in Psychiatric Research, 23(1), pp. 9-18. (doi: 10.1002/mpr.1436) (PMID:24496957) (PMCID:PMC6878585)

Edi, C. A.V. et al. (2014) Long-term trends in Anopheles gambiae insecticide resistance in Côte d’Ivoire. Parasites and Vectors, 7(500), (doi: 10.1186/s13071-014-0500-z) (PMID:25429888) (PMCID:PMC4269959)

Gorman, M., Khan, M. A.A., Johnson, P. C.D. , Hart, A. and Mathew, B. (2014) A model for lentigo maligna recurrence using melanocyte count as a predictive marker based upon logistic regression analysis of a blinded retrospective review. Journal of Plastic, Reconstructive and Aesthetic Surgery, 67(10), pp. 1322-1332. (doi: 10.1016/j.bjps.2014.05.058)

Ngufor, C., Tchicaya, E., Koudou, B., N'Fale, S., Dabire, R., Johnson, P. , Ranson, H. and Rowland, M. (2014) Combining organophosphate treated wall linings and long-lasting insecticidal nets for improved control of pyrethroid resistant anopheles gambiae. PLoS ONE, 9(1), e83897. (doi: 10.1371/journal.pone.0083897) (PMID:24409286) (PMCID:PMC3883662)

2013

Scott, R.A. et al. (2013) Large-scale association analyses identify new loci influencing glycemic traits and provide insight into the underlying biological pathways. Nature Genetics, 44(9), pp. 991-1005. (doi: 10.1038/ng.2385)

Allely, C.S., Purves, D., McConnachie, A. , Marwick, H., Johnson, P.C.D. , Doolin, O., Puckering, C., Golding, J., Gillberg, C. and Wilson, P. (2013) Parent–infant vocalisations at 12 months predict psychopathology at 7 years. Research in Developmental Disabilities, 34(3), pp. 985-993. (doi: 10.1016/j.ridd.2012.11.024)

Marwick, H., Doolin, O., Allely, C.S., McConnachie, A. , Johnson, P.C.D. , Puckering, C., Golding, J., Gillberg, C. and Wilson, P. (2013) Predictors of diagnosis of child psychiatric disorder in adult–infant social-communicative interaction at 12 months. Research in Developmental Disabilities, 34(1), pp. 562-572. (doi: 10.1016/j.ridd.2012.09.007)

Allely, C.S., Johnson, P.C.D. , Marwick, H., Lidstone, E., Kočovská, E., Puckering, C., McConnachie, A. , Golding, J., Gillberg, C. and Wilson, P. (2013) Prediction of 7-year psychopathology from mother-infant joint attention behaviours: a nested case–control study. BMC Pediatrics, 13(1), p. 147. (doi: 10.1186/1471-2431-13-147)

de Wet, C., Johnson, P.C.D. , O'Donnell, C. and Bowie, P. (2013) Can we quantify harm in general practice records? An assessment of precision and power using computer simulation. BMC Medical Research Methodology, 13(39), (doi: 10.1186/1471-2288-13-39)

McArthur, K.S., Johnson, P.C.D. , Quinn, T. , Higgins, P., Langhorne, P. , Walters, M.R. , Weir, C.J., Dawson, J. and Lees, K.R. (2013) Improving the efficiency of stroke trials: feasibility and efficacy of group adjudication of functional end points. Stroke, 14(12), pp. 3422-3428. (doi: 10.1161/STROKEAHA.113.002266)

2012

Tyrrell, J. et al. (2012) Genetic variation in the 15q25 nicotinic acetylcholine receptor gene cluster (CHRNA5-CHRNA3-CHRNB4) interacts with maternal self-reported smoking status during pregnancy to influence birth weight. Human Molecular Genetics, 21(24), pp. 5344-5358. (doi: 10.1093/hmg/dds372)

Kulkarni, S., Johnson, P.C.D. , Keatles, S. and Kasthuri, R.S. (2012) Music during interventional radiological procedures, effect on sedation, pain and anxiety: a randomised controlled trial. British Journal of Radiology, 85, pp. 1059-1063. (doi: 10.1259/bjr/71897605)

Munafo, M.R. et al. (2012) Association between genetic variants on chromosome 15q25 locus and objective measures of tobacco exposure. Journal of the National Cancer Institute, 104(10), pp. 740-748. (doi: 10.1093/jnci/djs191)

De Wet, C., Johnson, P.C.D. , Mash, R., McConnachie, A. and Bowie, P. (2012) Measuring perceptions of safety climate in primary care: a cross-sectional study. Journal of Evaluation in Clinical Practice, 18(1), pp. 135-142. (doi: 10.1111/j.1365-2753.2010.01537.x)

McGuinness, D. et al. (2012) Socio-economic status is associated with epigenetic differences in the pSoBid cohort. International Journal of Epidemiology, 41(1), pp. 151-160. (doi: 10.1093/ije/dyr215)

Johnson, P.C.D. , Logue, J. , McConnachie, A. , Abu-Rmeileh, N.M.E., Hart, C. , Upton, M.N., Lean, M.E.J. , Sattar, N. and Watt, G. (2012) Intergenerational change and familial aggregation of body mass index. European Journal of Epidemiology, 27(1), pp. 53-61. (doi: 10.1007/s10654-011-9639-5)

Jones, C.M., Sanou, A., Guelbeogo, W.M., Sagnon, N., Johnson, P.C.D. and Ranson, H. (2012) Aging partially restores the efficacy of malaria vector control in insecticide-resistant populations of Anopheles gambiae s.l. from Burkina Faso. Malaria Journal, 11(24), (doi: 10.1186/1475-2875-11-24)

Manning, A.K. et al. (2012) A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance. Nature Genetics, 44, pp. 659-669. (doi: 10.1038/ng.2274)

Williamson, A.E. , Johnson, P.C.D. , Mullen, K. and Wilson, P. (2012) The disappearance of the "revolving door" patient in Scottish general practice: successful policies. BMC Family Practice, 13(1), p. 95. (doi: 10.1186/1471-2296-13-95)

2011

Freathy, R.M. et al. (2011) Genetic variation at CHRNA5-CHRNA3-CHRNB4 interacts with smoking status to influence body mass index. International Journal of Epidemiology, 40(6), pp. 1617-28. (doi: 10.1093/ije/dyr077)

Smith, V.S., Ford, T., Johnson, K.P., Johnson, P.C.D. , Yoshizawa, K. and Light, J.E. (2011) Multiple lineages of lice pass through the K-Pg boundary. Biology Letters, 7(5), pp. 782-785. (doi: 10.1098/rsbl.2011.0105)

Inverarity, D., Diggle, M., Ure, R., Johnson, P.C.D. , Altstadt, P., Mitchell, T.J., Edwards, G. and Santana-Hernandez, D. (2011) Molecular epidemiology and genetic diversity of pneumococcal carriage among children in Beni State, Bolivia. Transactions of the Royal Society of Tropical Medicine and Hygiene, 105(8), pp. 445-451. (doi: 10.1016/j.trstmh.2011.04.013)

Adam, A., Webster, L.M.I., Mullen, W., Keller, L.F. and Johnson, P.C.D. (2011) Quantifying fenbendazole and its metabolites in self-medicating wild red grouse Lagopus lagopus scoticus using an HPLC–MS–MS approach. Veterinary Parasitology, 177(3-4), pp. 383-386. (doi: 10.1016/j.vetpar.2010.12.013)

Shiels, P.G. et al. (2011) Accelerated telomere attrition is associated with relative household income, diet and inflammation in the pSoBid cohort. PLoS ONE, 6(7), e22521. (doi: 10.1371/journal.pone.0022521)

2010

Timpson, N.J. et al. (2010) Genetic variation at the SLC23A1 locus is associated with circulating concentrations of L-ascorbic acid (vitamin C): evidence from 5 independent studies with >15,000 participants. American Journal of Clinical Nutrition, 92(2), pp. 375-382. (doi: 10.3945/ajcn.2010.29438) (PMID:20519558) (PMCID:PMC3605792)

Johnson, P.C.D. , Hadfield, J.D., Webster, L.M.I., Adam, A., Mable, B.K. and Keller, L.F. (2010) Bayesian paternity analysis and mating patterns in a parasitic nematode, Trichostrongylus tenuis. Heredity, 104(6), pp. 573-582. (doi: 10.1038/hdy.2009.139)

Hjalgrim, H. et al. (2010) HLA-A alleles and infectious mononucleosis suggest a critical role for cytotoxic T-cell response in EBV-related Hodgkin lymphoma. Proceedings of the National Academy of Sciences of the United States of America, 107(14), pp. 6400-6405. (doi: 10.1073/pnas.0915054107)

de Wet, C., Spence, W., Mash, R., Johnson, P.C.D. and Bowie, P. (2010) The development and psychometric evaluation of a safety climate measure for primary care. Quality and Safety in Health Care, 19(6), pp. 578-584. (doi: 10.1136/qshc.2008.031062)

Veitch, N.J. , Johnson, P.C.D. , Trivedi, U., Terry, S., Wildridge, D. and MacLeod, A. (2010) Digital gene expression analysis of two life cycle stages of the human-infective parasite, Trypanosoma brucei gambiense reveals differentially expressed clusters of co-regulated genes. BMC Medical Genomics, 11, p. 124. (doi: 10.1186/1471-2164-11-124)

Wade, A.G., Johnson, P.C.D. and McConnachie, A. (2010) Antidepressant treatment and cultural differences: a survey of the attitudes of physicians and patients in Sweden and Turkey. BMC Family Practice, 11(93), (doi: 10.1186/1471-2296-11-93)

2009

Temperley, N.D., Webster, L.M.I., Adam, A., Keller, L. and Johnson, P.C.D. (2009) Cross-species utility of microsatellite markers in trichostrongyloid nematodes. Journal of Parasitology, 95(2), pp. 487-489. (doi: 10.1645/GE-1624.1)

Wilson, R., Spiers, A., Ewan, J., Johnson, P.C.D. , Jenkins, C. and Carr, S. (2009) Effects of high dose oestrogen therapy on circulating inflammatory markers. Maturitas, 62(3), pp. 281-286. (doi: 10.1016/j.maturitas.2009.01.009)

2008

Webster, L.M.I., Johnson, P.C.D. , Adam, A., Mable, B.K. and Keller, L.F. (2008) Absence of three known benzimidazole resistance mutations in Trichostrongylus tenuis, a nematode parasite of avian hosts. Veterinary Parasitology, 158(4), pp. 302-310. (doi: 10.1016/j.vetpar.2008.09.029)

2007

Johnson, P.C.D. and Haydon, D.T. (2007) Software for quantifying and simulating microsatellite genotyping error. Bioinformatics and Biology Insights, 1, pp. 71-75.

Webster, L.M.I., Johnson, P.C.D. , Adam, A., Mable, B.K. and Keller, L.F. (2007) Macrogeographic population structure in a parasitic nematode with avian hosts. Veterinary Parasitology, 144(1-2), pp. 93-103. (doi: 10.1016/j.vetpar.2006.09.027)

2006

Johnson, P.C.D. , Webster, L.M.I., Adam, A., Buckland, R., Dawson, D.A. and Keller, L.F. (2006) Abundant variation in microsatellites of the parasitic nematode Trichostrongylus tenuis and linkage to a tandem repeat. Molecular and Biochemical Parasitology, 148(2), pp. 210-218. (doi: 10.1016/j.molbiopara.2006.04.011) (PMID:16765463)

2005

Seddon, N., Amos, W., Adcock, G., Johnson, P.C.D. , Kraaijeveld, K., Kraaijeveld-Smit, F.J.L., Lee, W., Senapathi, G.D., Mulder, R.A. and Tobias, J.A. (2005) Mating system, philopatry and patterns of kinship in the cooperatively breeding subdesert mesite Monias benschi. Molecular Ecology, 14(11), pp. 3573-3583. (doi: 10.1111/j.1365-294X.2005.02675.x)

Johnson, P.C.D. , Fowlie, M.K. and Amos, W. (2005) Isolation of microsatellite loci from the common buzzard, Buteo buteo (Aves: Accipitridae). Molecular Ecology, 5(2), pp. 208-211. (doi: 10.1111/j.1471-8286.2005.00878.x)

2003

Waldick, R.C., Johnson, P.C.D. and Pemberton, J. (2003) Identification and characterization of 14 polymorphic microsatellite loci for a member of the Herpestidae (Mungos mungo). Molecular Ecology Notes, 3(2), pp. 236-238. (doi: 10.1046/j.1471-8286.2003.00409.x)

2002

Johnson, P.C.D. , Whitfield, J.A., Foster, W.A. and Amos, W. (2002) Clonal mixing in the soldier-producing aphid Pemphigus spyrothecae (Hemiptera: Aphididae). Molecular Ecology, 11(8), pp. 1525-1531. (doi: 10.1046/j.1365-294X.2002.01530.x)

2001

Doncaster, C.P., Rondinini, C. and Johnson, P.C.D. (2001) Field test for environmental correlates of dispersal in hedgehogs Erinaceus europaeus. Journal of Animal Ecology, 70(1), pp. 33-46. (doi: 10.1111/j.1365-2656.2001.00471.x)

2000

Johnson, P.C.D. , Llewellyn, K.E.S. and Amos, W. (2000) Microsatellite loci for studying clonal mixing, population structure and inbreeding in a social aphid, Pemphigus spyrothecae (Hemiptera: Pemphigidae). Molecular Ecology, 9(9), pp. 1445-1446. (doi: 10.1046/j.1365-294x.2000.01017-8.x)

This list was generated on Thu Apr 18 19:20:06 2024 BST.

Jump to: Articles | Book Sections

Number of items: 100.

Articles

Shungin, D. et al. (2015) New genetic loci link adipose and insulin biology to body fat distribution. Nature, 518(7538), pp. 187-196. (doi: 10.1038/nature14132) (PMID:25673412) (PMCID:PMC4338562)

Locke, A. E. et al. (2015) Genetic studies of body mass index yield new insights for obesity biology. Nature, 518(7538), pp. 197-206. (doi: 10.1038/nature14177) (PMID:25673413) (PMCID:PMC4382211)

Johnson, P.C.D. and Haydon, D.T. (2007) Software for quantifying and simulating microsatellite genotyping error. Bioinformatics and Biology Insights, 1, pp. 71-75.

Book Sections

This list was generated on Thu Apr 18 19:20:06 2024 BST.

Grants

Grants and Awards listed are those received whilst working with the University of Glasgow.

Rift Valley Fever
Natural Environment Research Council
2021 - 2025
Studies on Ecology, Colonization and Genetic Diversity of the Afro-tropical Malaria Vector, Anopheles funestus
Bill and Melinda Gates Foundation
2017 - 2019
Comparing the fitness and patient landscapes of HIV-1 (ISSF Catalyst)
Wellcome Trust
2014 - 2015
Developing valid models of psychopathology experienced by adults with learning disabilities
Chief Scientist Office
2012 - 2013
The origins and mechanisms of human infectivity in African trypanosomes.
Wellcome Trust
2011 - 2017

Supervision

Current PhD students

Tijani Sulaimon: Network modelling analysis of the current and future role of livestock movements in the spread of infectious disease in northern Tanzania. Universities of Edinburgh & Glasgow Jointly Funded PhD Studentship. Supervisors: Rowland Kao, Paul Johnson, Jess Enright, Sarah Cleaveland
Natasha Jesudason: Inherited chromosomally integrated human herpesvirus 6. Supervisors: Ruth Jarrett, Paul Johnson

Githu, Victoria James
Improving the design Vector control trials
Kipingu, Andrea
Modelling to Optimize Malaria Vector Control

Former PhD students

Yixin Huang (PhD 2023)
- Title: Growth curves for cattle, and the effect of ammonia-treatment of cereal grains on bovine production performance and faecal proteome
- Supervisors: Nicholas Jonsson, David Eckersall, Paul Johnson
- Yixin is currently a lecturer at the Department of Clinical Veterinary Medicine, Sichuan Agricultural University, China
Gemma Chaters (PhD 2021).
- Title: An evaluation of the influence of livestock movements on the transmission, spread and persistence of infectious diseases in northern Tanzania
- Supervisors: Rowland Kao, Paul Johnson, Will de Glanville, Louise Matthews
- Gemma is an analyst at the Global Burden of Animal Diseases (GBADs) programme
James Nyarobi (PhD 2020)
- Title: The epidemiology of Rift Valley fever in northern Tanzania
- Supervisors: Sarah Cleaveland, Brian Willett, Heather Ferguson, Will de Glanville, Paul Johnson
- James is a Project Manager at Ecosystem-based Adaptation for Rural Resilience (EBARR) in Tanzania
Maganga Sambo (PhD 2019)
- Title: Measuring, monitoring and improving mass dog vaccination programmes to control and eliminate rabies
- Supervisors: Katie Hampson, Paul Johnson
- Maganga is a research fellow at Ifakara Health Institute and the University of Cambridge
Alan Reynolds (PhD 2016)
- Title: Applied evolution: An integrated approach to studying life history traits in response to drug selection
- Supervisors: Barbara Mable, Jan Lindström, Paul Johnson

Teaching

I teach on the following courses

Power Analysis and Experimental Design for IBAHCM Masters courses
Quantitative Methods for the Food Security MSc
Postgraduate Research Training Programme course Design and Analysis of Comparative Experiments

Research datasets

Jump to: 2022 | 2021 | 2020 | 2019

Number of items: 7.

2022

Johnson, P. , Orton, R. and Haydon, D. (2022) Evaluating the potential of whole-genome sequencing for tracing transmission routes in experimental infections and natural outbreaks of bovine respiratory syncytial virus. [Data Collection]

Huang, Y., Burchmore, R. , Jonsson, N. , Johnson, P. and Eckersall, D. (2022) Technical report: In-gel sample preparation prior to proteomic analysis of bovine faeces increases protein identifications by removal of high molecular weight glycoproteins. [Data Collection]

Siria, D., Sanou, R., Mitton, J., Mwanga, E., Niang, A., Saré, I., Johnson, P. , Wynne, K. , Murray-Smith, R. , Ferguson, H. , Gonzalez Jimenez, M. , Babayan, S. , Diabaté, A., Okumu, F. and Baldini, F. (2022) Rapid age-grading and species identification of natural mosquitoes for malaria surveillance. [Data Collection]

De Glanville, W., Nyarobi, J. M., Kibona, T., Halliday, J. , Thomas, K. M., Allan, K. , Johnson, P. , Davis, A. , Lankester, F., Claxton, J. , Rostal, M. K., Carter, R., de Jong, R. M.F., Rubach, M. P., Crump, J. A., Mmbaga, B. T., Nyasebwa, O. M., Swai, E. S., Willett, B. and Cleaveland, S. (2022) Inter-epidemic Rift Valley fever virus infection in livestock and risks for zoonotic spillover in northern Tanzania. [Data Collection]

2021

Shaw, A., Rihn, S. , Mollentze, N. , Wickenhagen, A., Stewart, D., Orton, R. , Kuchi, S., Bakshi, S., Collados Rodriguez, M. , Turnbull, M. , Busby, J., Gu, Q. , Smollett, K., Bamford, C., Sugrue, E. , Johnson, P. , Da Silva Filipe, A. , Castello, A. , Streicker, D. , Robertson, D. , Palmarini, M. and Wilson, S. (2021) The 'antiviral state' has shaped the CpG composition of the vertebrate interferome to avoid self-targeting. [Data Collection] (Unpublished)

2020

De Glanville, W., Davis, A. , Allan, K. , Buza, J., Claxton, J. , Crump, J. A., Halliday, J. , Johnson, P. , Kibona, T. J., Mmbaga, B. T., Swai, E. S., Uzzell, C., Yoder, J., Sharp, J. and Cleaveland, S. (2020) Classification and characterisation of livestock production systems in northern Tanzania. [Data Collection]

2019

Chaters, G., Johnson, P. , Cleaveland, S. , Crispell, J., De Glanville, W., Doherty, T., Matthews, L. , Mohr, S., Nyasebwa, O. M., Rossi, G., Salvador, L. , Swai, E. and Kao, R. (2019) Analysing livestock network data for infectious diseases control: an argument for routine data collection in emerging economies. [Data Collection]

This list was generated on Fri Apr 19 03:48:20 2024 BST.

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Hotjar and Clarity

Dr Paul Johnson

Biography

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Articles

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Supervision

Teaching

Research datasets

2022

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