James T MacDonald

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Paul FreemontProfessor of Protein Crystallography, Imperial College LondonVerified email at imperial.ac.uk
Geoff S. BaldwinProfessor of Synthetic & Molecular Biology, Imperial College LondonVerified email at imperial.ac.uk
Simon J MooreLecturer, School of Biological and Behavioural Sciences, Queen Mary University of LondonVerified email at qmul.ac.uk
Nicolas KylilisUniversity of CyprusVerified email at ucy.ac.cy
Tom EllisProfessor of Synthetic Genome Engineering, Imperial College LondonVerified email at imperial.ac.uk
William R TaylorDivision head, Mathematical Biology, National Institute for Medical Research, UKVerified email at nimr.mrc.ac.uk
Karen PolizziDepartment of Chemical Engineering, Imperial College LondonVerified email at imperial.ac.uk
Arturo CasiniAsimovVerified email at asimov.com
James W. MurraySenior Lecturer Imperial CollegeVerified email at imperial.ac.uk
Lawrence KelleyImperial College LondonVerified email at imperial.ac.uk
Benjamin L. MooreIlluminaVerified email at illumina.com
Velia SicilianoPrincipal Investigator, Istituto Italiano di Tecnologia, IITVerified email at iit.it
Michael I SadowskiDirector of Scientific Software, Synthace Ltd.Verified email at synthace.com
Rebekka BiedendieckTechnische Universität Braunschweig, Institute of Microbiology and Braunschweig Integrated Centre ofVerified email at tu-bs.de
Ben FieldCNRS, BIAM, MarseilleVerified email at univ-amu.fr
Guy-Bart StanProfessor of BioSystems Engineering and Control, RAEng Chair, Bioengineering, Imperial CollegeVerified email at imperial.ac.uk
Chris P BarnesUniversity College LondonVerified email at ucl.ac.uk
Richard KitneyProfessor of Biomedical Systems Engineering, Imperial College LondonVerified email at imperial.ac.uk
Inge JonassenProfessor, Head of Department of Informatics, University of BergenVerified email at uib.no
Burak V KabasakalTurkish Accelerator and Radiation LaboratoryVerified email at tarla.org.tr

James T MacDonald

Imperial College London

Verified email at imperial.ac.uk - Homepage

synthetic biology computational protein design


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Rapid acquisition and model-based analysis of cell-free transcription–translation reactions from nonmodel bacteria SJ Moore, JT MacDonald, S Wienecke, A Ishwarbhai, A Tsipa, R Aw, ... Proceedings of the National Academy of Sciences 115 (19), E4340-E4349, 2018	190	2018
Development of a Bacillus subtilis cell-free transcription-translation system for prototyping regulatory elements R Kelwick, AJ Webb, JT MacDonald, PS Freemont Metabolic engineering 38, 370-381, 2016	132	2016
One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy A Casini, JT MacDonald, JD Jonghe, G Christodoulou, PS Freemont, ... Nucleic acids research 42 (1), e7-e7, 2014	118	2014
Developments in the tools and methodologies of synthetic biology R Kelwick, JT MacDonald, AJ Webb, P Freemont Frontiers in bioengineering and biotechnology 2, 60, 2014	114	2014
Computational design approaches and tools for synthetic biology JT MacDonald, C Barnes, RI Kitney, PS Freemont, GBV Stan Integrative Biology 3 (2), 97-108, 2011	108	2011
Probing the “dark matter” of protein fold space WR Taylor, V Chelliah, SM Hollup, JT MacDonald, I Jonassen Structure 17 (9), 1244-1252, 2009	96	2009
Delineation of metabolic gene clusters in plant genomes by chromatin signatures. Yu N, Nützmann HW, MacDonald JT, Moore B, Field B, Berriri S, Trick M ... Nucleic Acids Research, 2016	75	2016
R2oDNA designer: computational design of biologically neutral synthetic DNA sequences A Casini, G Christodoulou, PS Freemont, GS Baldwin, T Ellis, ... ACS synthetic biology 3 (8), 525-528, 2014	68	2014
High–quality protein backbone reconstruction from alpha carbons using Gaussian mixture models BL Moore, LA Kelley, J Barber, JW Murray, JT MacDonald Journal of computational chemistry 34 (22), 1881-1889, 2013	63	2013
Emergence from nonrelativistic strong-field rescattering to ultrastrong-field laser-atom physics: A semiclassical analysis S Palaniyappan, I Ghebregziabher, A DiChiara, J MacDonald, BC Walker Physical Review A 74 (3), 033403, 2006	60	2006
OligoArchive: Using DNA in the DBMS storage hierarchy R Appuswamy, K Lebrigand, P Barbry, M Antonini, O Madderson, ... CIDR, 2019	46	2019
Cell-free synthetic biology for in vitro prototype engineering SJ Moore, JT MacDonald, PS Freemont Biochemical Society Transactions 45 (3), 785-791, 2017	46	2017
De novo backbone scaffolds for protein design JT MacDonald, K Maksimiak, MI Sadowski, WR Taylor Proteins: Structure, Function, and Bioinformatics 78 (5), 1311-1325, 2010	46	2010
Atomic structure of type VI contractile sheath from Pseudomonas aeruginosa O Salih, S He, S Planamente, L Stach, JT MacDonald, E Manoli, ... Structure 26 (2), 329-336. e3, 2018	43	2018
Cell-free protein synthesis as a prototyping platform for mammalian synthetic biology MB Kopniczky, C Canavan, DW McClymont, MA Crone, L Suckling, ... ACS synthetic biology 9 (1), 144-156, 2020	37	2020
A protease-based biosensor for the detection of schistosome cercariae AJ Webb, R Kelwick, MJ Doenhoff, N Kylilis, JT MacDonald, KY Wen, ... Scientific reports 6 (1), 24725, 2016	34	2016
Generation of highly symmetric, cylindrically convergent shockwaves in water SN Bland, YE Krasik, D Yanuka, R Gardner, J MacDonald, A Virozub, ... Physics of Plasmas 24 (8), 2017	31	2017
Unfolding crystallins: The destabilizing role of a β‐hairpin cysteine in βB2‐crystallin by simulation and experiment JT Macdonald, AG Purkiss, MA Smith, P Evans, JM Goodfellow, ... Protein science 14 (5), 1282-1292, 2005	31	2005
Synthetic beta-solenoid proteins with the fragment-free computational design of a beta-hairpin extension JT MacDonald, BV Kabasakal, D Godding, S Kraatz, L Henderson, ... Proceedings of the National Academy of Sciences, 2016	29	2016
Structural and mechanistic insight into the Listeria monocytogenes two-enzyme lipoteichoic acid synthesis system I Campeotto, MG Percy, JT MacDonald, A Förster, PS Freemont, ... Journal of Biological Chemistry 289 (41), 28054-28069, 2014	28	2014

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