James T MacDonald
James T MacDonald
Verified email at imperial.ac.uk - Homepage
TitleCited byYear
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
872011
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, 2013
772013
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
742014
Probing the “dark matter” of protein fold space
WR Taylor, V Chelliah, SM Hollup, JT MacDonald, I Jonassen
Structure 17 (9), 1244-1252, 2009
692009
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
462018
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
432014
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
372016
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
342010
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
322013
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
262016
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
262005
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, 24725, 2016
232016
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
182016
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
182014
Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis
D Lu, J Silhan, JT MacDonald, EP Carpenter, K Jensen, CM Tang, ...
Proceedings of the National Academy of Sciences 109 (42), 16852-16857, 2012
182012
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
142018
Validating a coarse-grained potential energy function through protein loop modelling
JT MacDonald, LA Kelley, PS Freemont
PLoS One 8 (6), e65770, 2013
142013
Computational protein design with backbone plasticity
JT MacDonald, PS Freemont
Biochemical Society Transactions 44, 1523-1529, 2016
122016
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), 082702, 2017
112017
Cell-free synthetic biology for in vitro prototype engineering
SJ Moore, JT MacDonald, PS Freemont
Biochemical Society Transactions 45 (3), 785-791, 2017
92017
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Articles 1–20