Computational explorations in the space of one-component crystals

por Doye, Jonathan P. K., Noya, Eva G.
Publicado en Proc Natl Acad Sci U S A (2021)

Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA

por Matek, Christian, Ouldridge, Thomas E., Doye, Jonathan P. K., Louis, Ard A.
Publicado en Sci Rep (2015)

Chiral shape fluctuations and the origin of chirality in cholesteric phases of DNA origamis

por Tortora, Maxime M. C., Mishra, Garima, Prešern, Domen, Doye, Jonathan P. K.
Publicado en Sci Adv (2020)

DNA hybridization kinetics: zippering, internal displacement and sequence dependence

por Ouldridge, Thomas E., Šulc, Petr, Romano, Flavio, Doye, Jonathan P. K., Louis, Ard A.
Publicado 2013

Modelling Toehold-Mediated RNA Strand Displacement

por Šulc, Petr, Ouldridge, Thomas E., Romano, Flavio, Doye, Jonathan P.K., Louis, Ard A.
Publicado en Biophys J (2015)

Rolling circle amplification shows a sinusoidal template length-dependent amplification bias

por Joffroy, Bastian, Uca, Yavuz O, Prešern, Domen, Doye, Jonathan P. K, Schmidt, Thorsten L
Publicado en Nucleic Acids Res (2018)

Coarse-grained modelling of the structural properties of DNA origami

por Snodin, Benedict E K, Schreck, John S, Romano, Flavio, Louis, Ard A, Doye, Jonathan P K
Publicado en Nucleic Acids Res (2019)

Identifying Physical Causes of Apparent Enhanced Cyclization of Short DNA Molecules with a Coarse-Grained Model

por Harrison, Ryan M., Romano, Flavio, Ouldridge, Thomas E., Louis, Ard A., Doye, Jonathan P. K.
Publicado en J Chem Theory Comput (2019)

Design principles for rapid folding of knotted DNA nanostructures

por Kočar, Vid, Schreck, John S., Čeru, Slavko, Gradišar, Helena, Bašić, Nino, Pisanski, Tomaž, Doye, Jonathan P. K., Jerala, Roman
Publicado en Nat Commun (2016)

DNA hairpins destabilize duplexes primarily by promoting melting rather than by inhibiting hybridization

por Schreck, John S., Ouldridge, Thomas E., Romano, Flavio, Šulc, Petr, Shaw, Liam P., Louis, Ard A., Doye, Jonathan P.K.
Publicado en Nucleic Acids Res (2015)

DNA bipedal motor walking dynamics: an experimental and theoretical study of the dependency on step size

por Khara, Dinesh C, Schreck, John S, Tomov, Toma E, Berger, Yaron, Ouldridge, Thomas E, Doye, Jonathan P K, Nir, Eyal
Publicado en Nucleic Acids Res (2018)

On the biophysics and kinetics of toehold-mediated DNA strand displacement

por Srinivas, Niranjan, Ouldridge, Thomas E., Šulc, Petr, Schaeffer, Joseph M., Yurke, Bernard, Louis, Ard A., Doye, Jonathan P. K., Winfree, Erik
Publicado 2013

Design and synthesis of pleated DNA origami nanotubes with adjustable diameters

por Berengut, Jonathan F, Berengut, Julian C, Doye, Jonathan P K, Prešern, Domen, Kawamoto, Akihiro, Ruan, Juanfang, Wainwright, Madeleine J, Lee, Lawrence K
Publicado en Nucleic Acids Res (2019)

Substrate conformational dynamics facilitate structure-specific recognition of gapped DNA by DNA polymerase

por Craggs, Timothy D, Sustarsic, Marko, Plochowietz, Anne, Mosayebi, Majid, Kaju, Hendrik, Cuthbert, Andrew, Hohlbein, Johannes, Domicevica, Laura, Biggin, Philip C, Doye, Jonathan P K, Kapanidis, Achillefs N
Publicado en Nucleic Acids Res (2019)