Understanding and mitigating errors and biases in metabarcoding: an introduction for non-specialists
M.D. Preston, M. Fritzsche, P. Woodcock
2022 DEFRA JNCC JNCC 699 ISSN 0963-8091

An Action Plan for making progress with using DNA to monitor terrestrial invertebrates 2021
P. Woodcock, J. Cottrell, D. Heaver, N. Barsoum, D. Leatherland, R. Askew, A. Briscoe, A. Burian, A. Cole, D. Cooke, J. Day, K. Deiner, D. Genney, M. Gurney, M. Harris, H. Hipperson, E. Jones, M. Lawniczak, C. Macadam, C. McSorley, K. Miller, S. Mynott, A. Nisbet., K. Peck, M.D. Preston, B. Price, D. Read, H. Rees, A. Robinson, A. Stringer, D. Yu
2021 DEFRA DNA Centre of Excellence JNCC 691 ISSN 0963-8091

ETS factors are required but not sufficient for specific patterns of enhancer activity in different endothelial subtypes
A. Neal, S. Nornes, P. Louphrasitthipol, N. Sacilotto, M.D. Preston, L. Fleisinger, S. Payne, S. De Val
2021 Developmental Biology 10.1016/j.ydbio.2021.01.002

The Use of Next-Generation Sequencing for the Quality Control of Live-Attenuated Polio Vaccines
B. Charlton, J. Hockley, M. Laassri, T. Wilton, L. Crawt, M.D. Preston, NGS Study Group, P. Rigsby, K. Chumakov, J. Martin
2020 Journal of Infectious Diseases 10.1093/infdis/jiaa299

Vaccination of macaques with DNA followed by adenoviral vectors encoding simian immunodeficiency virus (SIV) Gag alone delays infection by repeated mucosal challenge with SIV
N. Almond, N. Berry, R. Stebbings, M.D. Preston, C. Ham, M. Page, D. Ferguson, N. Rose, B. Li, E.T. Mee, M. Hassall, C. Stahl-Hennig, T. Athanasopoulos, T. Papagatsias, S. Herath, A. Benlahrech, G. Dickson, A. Meiser, S. Patterson
2019 Journal of Virology 10.1128/JVI.00606-19

Report on the WHO collaborative study to investigate the utility of next generation sequencing (NGS) as a molecular test of virus stocks used in the manufacture of Poliovirus vaccine (Oral)
J. Martin, K. Chumakov, J. Hockley, T. Wilton, L. Crawt, M. Majumdar, E. Mee, B. Valdazo-Gonzalez, NGS Study Group, M. D. Preston, P. Rigsby, B. Charlton
2019 WHO Expert Committee Report

Clostridium difficile clade 3 (RT023) have a modified cell surface and contain a large transposable island with novel cargo
H.A. Shaw, L. Khodadoost, M.D. Preston, J. Corver, P. Mullany, B.W. Wren
2019 Nature Scientific Reports 10.1038/s41598-019-51628-5

The recent emergence of a highly related virulent Clostridium difficile clade with unique characteristics
H.A. Shaw, M.D. Preston, K.E.W. Vendrik, M.D. Cairns, H.P. Browne, R.A. Stabler, M.J.T. Crobach, J. Corver, H. Pituch, A. Ingebretsen, M. Pirmohamed, A. Faulds-Pain, E. Valiente, T.D. Lawley, N.F. Fairweather, E.J. Kuijper, B.W. Wren
2019 Clinical Microbiology and Infection 10.1016/j.cmi.2019.09.004

Para-cresol production by Clostridium difficile affects microbial diversity and membrane integrity of Gram-negative bacteria
I.J. Passmore, M.P.M. Letertre, M.D. Preston, I. Bianconi, M.A. Harrison, F. Nasher, H. Kaur, H.A. Hong, S.D. Baines, S.M. Cutting, J.R. Swann, B.W. Wren, L.F. Dawson
2018 PLoS Pathogens 10.1371/journal.ppat.1007191

Pathways-wide genetic risks in Chlamydial infections overlap between tissue tropisms: A genome-wide association scan
C.h. Roberts, S. Ouberg, M.D. Preston, H.J.C. de Vries, M.J. Holland, S.A. Morre
2018 Mediators of Inflammation 10.1155/2018/3434101

Frequent Undetected Ward-Based Methicillin-Resistant Staphylococcus aureus Transmission Linked to Patient Sharing Between Hospitals
O. Tosas Auguet, R.A. Stabler, J. Betley M.D. Preston, M. Dhaliwal, M. Gaunt, A. Ioannou, N. Desai, T. Karadag, R. Batra, J.A. Otter, H. Marbach, T.G. Clark, J.D. Edgeworth
2018 Clinical Infectious Diseases 10.1093/cid/cix901

Comparative genome analysis and global phylogeny of the toxin variant Clostridium difficile PCR ribotype 017 reveals the evolution of two independent sublineages
M.D. Cairns, M.D. Preston, C.L. Hall, D.N. Gerding, P.M. Hawkey, H. Kato, H. Kim, E.J. Kuijper, T.D. Lawley, H. Pituch, S. Reid, B. Kullin, T.V. Riley, K. Solomon, P.J. Tsai, J.S. Weese, R.A. Stabler, B.W. Wren
2017 J. Clinical Microbiology 10.1128/JCM.01296-16

The nature of the conserved basic amino acid sequences found among 437 heparin binding proteins determined by network analysis
T.R. Rudd, M.D. Preston, E.A. Yates
2017 Molecular BioSystems 10.1039/C6MB00857G

From FASTQ to Function: In Silico Methods for Processing Next-Generation Sequencing Data
M.D. Preston, R.A. Stabler
2016 Clostridium difficile: Methods and Protocols 10.1007/978-1-4939-6361-4_3

Development of a candidate reference material for adventitious virus detection in vaccine and biologicals manufacturing by deep sequencing
E.T. Mee, M.D. Preston, P.D. Minor, S. Schepelmann, CSS Participants
2016 Vaccine 10.1016/j.vaccine.2015.12.020

Conjunctival fibrosis and the innate barriers to Chlamydia trachomatis intracellular infection: a genome wide association study
C.h. Roberts, C. S. Franklin, P. Makalo, H. Joof, I. Sarr, O.S. Mahdi, A. Sillah, M. Bah, F. Payne, A.E. Jeffreys, W. Bottomley, A. Natividad, S. Molina-Gonzalez, S.E. Burr, M.D. Preston, D. Kwiatkowski, K.A. Rockett, T.G. Clark, M.J. Burton, D.C.W. Mabey, R. Bailey, I.S. Barros, M.J. Holland
2015 Nature Scientific Reports 10.1038/srep17447

Population genomic structure and adaptation in the zoonotic malaria parasite Plasmodium knowlesi
S.A. Assefa, C. Lim, M.D. Preston, C.W. Duffy, M.B. Nair, S.A. Adroub, K.A. Kadir, J.M. Goldberg, D.E. Neafsey, P. Divis, T.G. Clark, M.T. Duraisingh, D.J. Conway, A. Pain, B. Singh
2015 Proceedings of the National Academy of Sciences 10.1073/pnas.1509534112

Impact of individual movement and changing resource availability on male-female encounter rates in an herbivorous insect
M.D. Preston, M.L. Forister, J.W. Pitchford, P.A. Armsworth
2015 Ecological Complexity 10.1016/j.ecocom.2015.07.004

Genomic epidemiology of a protracted hospital outbreak caused by a toxin A negative, Clostridium difficile sublineage PCR Ribotype 017 strain in London, England.
M.D. Cairns, M.D. Preston, T.D. Lawley, T.G. Clark, R.A. Stabler, B.W. Wren
2015 J. Clinical Microbiology 10.1128/JCM.00648-15

Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences
F. Coll, R. McNerney, M.D. Preston, J.A. Guerra-Assuncaol, A. Warry, G. Hill-Cawthrone, K. Mallard, M. Nair, A. Miranda, A. Alves, J. Perdigao, M. Voveoros, I. Portugal, Z. Hasan, R. Hasan, J.R. Glynn, N. Martin, A. Pain, T.G. Clark
2015 Genome Medicine 10.1186/s13073-015-0164-0

Imputation-based population genetics analysis of Plasmodium falciparum malaria parasites
H. Samad, F. Coll, M.D. Preston, H. Ocholla, R.M. Fairhurst, T.G. Clark
2015 PLoS Genetic 10.1371/journal.pgen.1005131

On a singular initial-value problem for the Navier-Stokes equations
L.E. Fraenkel, M.D. Preston
2015 Mathematika 10.1112/S0025579314000333

Whole-genome scans provide evidence of adaptive evolution in Malawian Plasmodium falciparum isolates
H. Ocholla, M.D. Preston, M. Mipando, A.T. Jensen, S. Campino, B. MacInnis, D. Alcock, A. Terlouw, I. Zongo, J-B. Oudraogo, A. Djimda, S.A. Assefa, O. Doumbo, S. Borrmann, A. Nzila, K. Marsh, R.M. Fairhurst, F. Nosten, T.J. Anderson, D.P. Kwiatkowski, A. Craig, T.G. Clark, J. Montgomery
2014 J. Infectious Diseases 10.1093/infdis/jiu349

A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains
M.D. Preston, S. Campino, S.A. Assefa, D. Echeverry, H. Ocholla, A. Amambua-Ngwa, L.B. Stewart, D.J. Conway, S. Borrmann, P. Michon, I. Zongo, J-B. Ouedraogo, A. Djimda, O. Doumbo, F. Nosten, A. Pain, T. Bousema, C.J. Drakeley, R.M. Fairhurst, C.J. Sutherland, C. Roper T.G. Clark
2014 Nature Communications 10.1038/ncomms5052

SVAMP: Sequence variation analysis, maps and phylogeny
R. Naeem, L. Hidayah, M.D. Preston, T.G. Clark, A. Pain
2014 Bioinformatics 10.1093/bioinformatics/btu176

PolyTB: A genomic variation map for Mycobacterium tuberculosis
F. Coll, M.D. Preston, J.A. Guerra-Assuncao, G. Hill-Cawthorn, D. Harris, J. Perdigao, M. Viveiros, I. Portugal, F. Drobniewski, S. Gagneux, J.R. Glynn, A. Pain, J. Parkhill, R. McNerney, N. Martin, T.G. Clark
2014 Tuberculosis 10.1016/j.tube.2014.02.005

PlasmoView: A web-based resourse to visualise global Plasmodium falciparum genomic variation
M.D. Preston, S.A. Assefa, H. Ocholla, C.J Sutherland, S. Borrmann, A. Nzila, P. Michon, TT Hien, T Bousema, C.J. Drakeley, I. Zongo, J.B. Ouedraogo, A.A. Djimde, O.K. Doumbo, F. Nosten, R.M. Fairhurst, D.J. Conway, C. Roper, T.G. Clark
2013 J. Infectious Diseases 10.1093/infdis/jit812

Using family-based designs for detecting rare variant disease associations
M.D. Preston, F. Dudbridge
2013 Annals of Human Genetics 10.1111/ahg.12051

EstMoi: Estimating multiplicity of infection using parasite deep sequencing data
S.A. Assefa, M.D. Preston, S. Campino, H. Ocholla, C.J. Sutherland, T.G. Clark
2013 Bioinformatics 10.1093/bioinformatics/btu005

Elucidating Emergence and Transmission of Multidrug-Resistant Tuberculosis in Treatment Experienced Patients by Whole Genome Sequencing
T.G. Clark, K. Mallard, F. Coll, M.D. Preston, S.A. Assefa, D. Harris, S. Ogwang, F. Mumbowa, B. Kirenga, D.M. O'Sullivan, A. Okwera, K.D. Eisenach, M. Joloba, S.D. Bentley, J.J. Ellner, J. Parkhill, E.C. Jones-Lopez, R. McNerney
2013 Plos One 10.1371/journal.pone.0083012

Dystromirs as serum biomarkers for monitoring the disease severity in Duchenne Muscular Dystrophy
I.T. Zaharieva, M. Calissano, M. Scoto, M.D. Preston, S. Cirak, L. Feng, J. Collins, R. Kole, M. Guglieri, V. Straub, K. Bushby, A. Ferlini, J.E. Morgan, F. Muntoni
2013 Plos One 10.1371/journal.pone.0080263

SpolPred: Rapid and accurate prediction of Mycobacterium tuberculosis spoligotypes from short genomic sequences
F. Coll, K. Mallard, M.D. Preston, S. Bentley, J. Parkhill, R. McNerney, N. Martin, T.G. Clark
2012 Bioinformatics 10.1093/bioinformatics/bts544

VarB: A variation browsing tool for polymorphisms derived from next-generation sequence data
M.D. Preston, H.M. Manske et al.
2012 Bioinformatics 10.1093/bioinformatics/bts557

A Nyström method for a boundary value problem arising in unsteady water wave problems
M.D. Preston, S.N. Chandler-Wilde, P.G. Chamberlain
2011 IMA: J. Numerical Analysis 10.1093/imanum/drq009

Evolutionary optimality in stochastic search problems
M.D. Preston, J.W. Pitchford, A.J. Wood
2010 J. Royal Society Interface 10.1098/rsif.2010.0090

An integral equation method for a boundary value problem arising in unsteady water wave problems
M.D. Preston, S.N. Chandler-Wilde, P.G. Chamberlain
2008 J. Integral Equations and Applications 10.1216/JIE-2008-20-1-121

Conferences

Poster: Butterfly mating, Won 3rd Prize in Poster Competition.
M.D. Preston, J.W. Pitchford, P.R. Armsworth, M. Forrister
2012 UCL Computational Life and Medical Sciences Network Annual Symposium, London -

Paper: An integral equation method for a boundary value problem arising in unsteady water wave problems
M.D. Preston, S.N. Chandler-Wilde, P.G. Chamberlain
2005 Proc. of the UKBIM5, Liverpool

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Selected Publications

Report on the WHO collaborative study to investigate the utility of next generation sequencing (NGS) as a molecular test of virus stocks used in the manufacture of Poliovirus vaccine (Oral)
J. Martin, K. Chumakov, J. Hockley, T. Wilton, L. Crawt, M. Majumdar, E. Mee, B. Valdazo-Gonzalez, NGS Study Group, M. D. Preston, P. Rigsby, B. Charlton
2018 WHO Expert Committee Report

The nature of the conserved basic amino acid sequences found among 436 heparin binding proteins determined by network analysis
T.R. Rudd, M.D. Preston, E.A. Yates
2016 Molecular BioSystems 10.1039/C6MB00857G

On a singular initial-value problem for the Navier-Stokes equations
L.E. Fraenkel, M.D. Preston
2014 Mathematika 10.1112/S0025579314000333

A barcode of organellar genome polymorphisms identifies the geographic origin of Plasmodium falciparum strains
M.D. Preston, et al.
2013 Nature Communications 10.1038/ncomms5052

PlasmoView: A web-based resourse to visualise global Plasmodium falciparum genomic variation
M.D. Preston, et al.
2012 J. Infectious Diseases 10.1093/infdis/jit812