Understanding and Designing Novel NanoPores

Project Information

DesignerPores

Grant agreement ID: 647144

DOI 10.3030/647144

Project closed

EC signature date 26 June 2015

Start date 1 July 2015

End date 30 June 2021

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost € 1 936 431,00

EU contribution € 1 936 431,00

Coordinated by

THE CHANCELLOR MASTERS AND SCHOLARS OF THE UNIVERSITY OF CAMBRIDGE
United Kingdom

Publications

Peer reviewed articles (42)

Digital Sensing and Molecular Computation by an Enzyme-Free DNA Circuit

Author(s): William E. Arter; Yuriy Yusim; Quentin Peter; Chris Taylor; David Klenerman; Ulrich F. Keyser; Tuomas P. J. Knowles
Published in: ACS Nano, Issue 3, 2020, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.17863/cam.56064

Optimizing Brownian escape rates by potential shaping

Author(s): Marie Chupeau, Jannes Gladrow, Alexei Chepelianskii, Ulrich F. Keyser, Emmanuel Trizac
Published in: Proceedings of the National Academy of Sciences, Issue 117/3, 2020, Page(s) 1383-1388, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.1910677116

Electrical DNA Sequence Mapping Using Oligodeoxynucleotide Labels and Nanopores

Author(s): Kaikai Chen, Felix Gularek, Boyao Liu, Elmar Weinhold, Ulrich F. Keyser
Published in: ACS Nano, Issue 15/2, 2021, Page(s) 2679-2685, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.1021/acsnano.0c07947

Experimental Measurement of Relative Path Probabilities and Stochastic Actions

Author(s): Jannes Gladrow, Ulrich F. Keyser, R. Adhikari, Julian Kappler
Published in: Physical Review X, Issue 11/3, 2021, ISSN 2160-3308
Publisher: American Physical Society
DOI: 10.1103/physrevx.11.031022

Nanopore-Based DNA Hard Drives for Rewritable and Secure Data Storage

Author(s): Kaikai Chen, Jinbo Zhu, Filip Bošković, Ulrich F. Keyser
Published in: Nano Letters, Issue 20/5, 2020, Page(s) 3754-3760, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.0c00755

Single-cell microfluidics facilitates the rapid quantification of antibiotic accumulation in Gram-negative bacteria

Author(s): Jehangir Cama, Margaritis Voliotis, Jeremy Metz, Ashley Smith, Jari Iannucci, Ulrich F. Keyser, Krasimira Tsaneva-Atanasova, Stefano Pagliara
Published in: Lab on a Chip, Issue 20/15, 2020, Page(s) 2765-2775, ISSN 1473-0197
Publisher: Royal Society of Chemistry
DOI: 10.1039/d0lc00242a

Particle transport across a channel via an oscillating potential

Author(s): Yizhou Tan, Jannes Gladrow, Ulrich F. Keyser, Leonardo Dagdug, Stefano Pagliara
Published in: Physical Review E, Issue 96/5, 2017, ISSN 2470-0045
Publisher: American Physical Society
DOI: 10.1103/physreve.96.052401

Characterization of lipid composition and diffusivity in OLA generated vesicles

Author(s): Michael Schaich, Diana Sobota, Hannah Sleath, Jehangir Cama, Ulrich F. Keyser
Published in: Biochimica et Biophysica Acta (BBA) - Biomembranes, Issue 1862/9, 2020, Page(s) 183359, ISSN 0005-2736
Publisher: Elsevier BV
DOI: 10.1016/j.bbamem.2020.183359

Direct detection of molecular intermediates from first-passage times

Author(s): Alice L. Thorneywork, Jannes Gladrow, Yujia Qing, Marc Rico-Pasto, Felix Ritort, Hagan Bayley, Anatoly B. Kolomeisky, Ulrich F. Keyser
Published in: Science Advances, Issue 6/18, 2020, Page(s) eaaz4642, ISSN 2375-2548
Publisher: American Association for the Advancement of Science
DOI: 10.1126/sciadv.aaz4642

Switching Cytolytic Nanopores into Antimicrobial Fractal Ruptures by a Single Side Chain Mutation

Author(s): Katharine Hammond, Flaviu Cipcigan, Kareem Al Nahas, Valeria Losasso, Helen Lewis, Jehangir Cama, Fausto Martelli, Patrick W. Simcock, Marcus Fletcher, Jascindra Ravi, Phillip J. Stansfeld, Stefano Pagliara, Bart W. Hoogenboom, Ulrich F. Keyser, Mark S. P. Sansom, Jason Crain, Maxim G. Ryadnov
Published in: ACS Nano, Issue 15/6, 2021, Page(s) 9679-9689, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.1021/acsnano.1c00218

Kinetics of Toehold-Mediated DNA Strand Displacement Depend on FeII4L4 Tetrahedron Concentration.

Author(s): Jinbo Zhu; Filip Bošković; Bao-Nguyen T. Nguyen; Jonathan R. Nitschke; Ulrich F. Keyser
Published in: Nano Letters, Issue 4, 2021, ISSN 1530-6992
Publisher: American Chemical Society
DOI: 10.17863/cam.63011

Cations Regulate Membrane Attachment and Functionality of DNA Nanostructures.

Author(s): Morzy, Diana; Rubio-Sánchez, Roger; Joshi, Himanshu; Aksimentiev, Aleksei; Di Michele, Lorenzo; Keyser, Ulrich F
Published in: Journal of the American Chemical Society, Issue 3, 2021, ISSN 0002-7863
Publisher: American Chemical Society
DOI: 10.17863/cam.68738

Large-Conductance Transmembrane Porin Made from DNA Origami

Author(s): Kerstin Göpfrich, Chen-Yu Li, Maria Ricci, Satya Prathyusha Bhamidimarri, Jejoong Yoo, Bertalan Gyenes, Alexander Ohmann, Mathias Winterhalter, Aleksei Aksimentiev, Ulrich F. Keyser
Published in: ACS Nano, 2016, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.1021/acsnano.6b03759

Digitally encoded DNA nanostructures for multiplexed, single-molecule protein sensing with nanopores

Author(s): Nicholas A. W. Bell, Ulrich F. Keyser
Published in: Nature Nanotechnology, Issue 11/7, 2016, Page(s) 645-651, ISSN 1748-3387
Publisher: Nature Publishing Group
DOI: 10.1038/nnano.2016.50

Ion Channels Made from a Single Membrane-Spanning DNA Duplex

Author(s): Kerstin Göpfrich, Chen-Yu Li, Iwona Mames, Satya Prathyusha Bhamidimarri, Maria Ricci, Jejoong Yoo, Adam Mames, Alexander Ohmann, Mathias Winterhalter, Eugen Stulz, Aleksei Aksimentiev, Ulrich F. Keyser
Published in: Nano Letters, Issue 16/7, 2016, Page(s) 4665-4669, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.6b02039

Extrinsic Cation Selectivity of 2D Membranes

Author(s): Walker, MI; Ubych, K; Saraswat, V; Chalklen, EA; Braeuninger-Weimer, P; Caneva, S; Weatherup, RS; Hofmann, S; Keyser, UF
Published in: ACS Nano, Issue 3, 2017, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.17863/CAM.9055

Asymmetric dynamics of DNA entering and exiting a strongly confining nanopore

Author(s): Nicholas A. W. Bell, Kaikai Chen, Sandip Ghosal, Maria Ricci, Ulrich F. Keyser
Published in: Nature Communications, Issue 8/1, 2017, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-017-00423-9

Correction to Ion Channels Made from a Single Membrane-Spanning DNA Duplex

Author(s): Kerstin Göpfrich, Chen-Yu Li, Iwona Mames, Satya Prathyusha Bhamidimarri, Maria Ricci, Jejoong Yoo, Adam Mames, Alexander Ohmann, Mathias Winterhalter, Eugen Stulz, Aleksei Aksimentiev, Ulrich F. Keyser
Published in: Nano Letters, Issue 17/7, 2017, Page(s) 4548-4548, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.7b02430

Ionic Current-Based Mapping of Short Sequence Motifs in Single DNA Molecules Using Solid-State Nanopores

Author(s): Kaikai Chen, Matyas Juhasz, Felix Gularek, Elmar Weinhold, Yu Tian, Ulrich F. Keyser, Nicholas A. W. Bell
Published in: Nano Letters, Issue 17/9, 2017, Page(s) 5199-5205, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.7b01009

Optical Voltage Sensing Using DNA Origami.

Author(s): Hemmig, Elisa A; Fitzgerald, Clare; Maffeo, Christopher; Hecker, Lisa; Ochmann, Sarah E; Aksimentiev, Aleksei; Tinnefeld, Philip; Keyser, Ulrich Felix
Published in: Nano Letters, Issue 3, 2018, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.17863/CAM.22565

QuipuNet: Convolutional Neural Network for Single-Molecule Nanopore Sensing

Author(s): Karolis Misiunas, Niklas Ermann, Ulrich F. Keyser
Published in: Nano Letters, Issue 18/6, 2018, Page(s) 4040-4045, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.8b01709

Tunable Anion-Selective Transport through Monolayer Graphene and Hexagonal Boron Nitride

Author(s): Mustafa Caglar, Inese Silkina, Bertram T. Brown, Alice L. Thorneywork, Oliver J. Burton, Vitaliy Babenko, Stephen Matthew Gilbert, Alex Zettl, Stephan Hofmann, Ulrich F. Keyser
Published in: ACS Nano, 2020, ISSN 1936-0851
Publisher: American Chemical Society
DOI: 10.1021/acsnano.9b08168

An Integrated Microfluidic Platform for Quantifying Drug Permeation across Biomimetic Vesicle Membranes

Author(s): Michael Schaich, Jehangir Cama, Kareem Al Nahas, Diana Sobota, Hannah Sleath, Kevin Jahnke, Siddharth Deshpande, Cees Dekker, Ulrich F. Keyser
Published in: Molecular Pharmaceutics, Issue 16/6, 2019, Page(s) 2494-2501, ISSN 1543-8384
Publisher: American Chemical Society
DOI: 10.1021/acs.molpharmaceut.9b00086

A microfluidic platform for the characterisation of membrane active antimicrobials

Author(s): K. Al Nahas, J. Cama, M. Schaich, K. Hammond, S. Deshpande, C. Dekker, M. G. Ryadnov, U. F. Keyser
Published in: Lab on a Chip, Issue 19/5, 2019, Page(s) 837-844, ISSN 1473-0197
Publisher: Royal Society of Chemistry
DOI: 10.1039/c8lc00932e

Current Enhancement in Solid-State Nanopores Depends on Three-Dimensional DNA Structure

Author(s): Vivian Wang, Niklas Ermann, Ulrich F. Keyser
Published in: Nano Letters, Issue 19/8, 2019, Page(s) 5661-5666, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.9b02219

Monitoring G-Quadruplex Formation with DNA Carriers and Solid-State Nanopores

Author(s): Filip Bošković, Jinbo Zhu, Kaikai Chen, Ulrich F. Keyser
Published in: Nano Letters, Issue 19/11, 2019, Page(s) 7996-8001, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.9b03184

Multiplexed DNA Identification Using Site Specific dCas9 Barcodes and Nanopore Sensing

Author(s): Nicole E. Weckman, Niklas Ermann, Richard Gutierrez, Kaikai Chen, James Graham, Ran Tivony, Andrew Heron, Ulrich F. Keyser
Published in: ACS Sensors, Issue 4/8, 2019, Page(s) 2065-2072, ISSN 2379-3694
Publisher: American Chemcial Society
DOI: 10.1021/acssensors.9b00686

Cation dependent electroosmotic flow in glass nanopores

Author(s): Jeffrey Mc Hugh, Kurt Andresen, Ulrich F. Keyser
Published in: Applied Physics Letters, Issue 115/11, 2019, Page(s) 113702, ISSN 0003-6951
Publisher: American Institute of Physics
DOI: 10.1063/1.5116760

Nonlinear Electrophoresis of Highly Charged Nonpolarizable Particles

Author(s): Soichiro Tottori, Karolis Misiunas, Ulrich F. Keyser, Douwe Jan Bonthuis
Published in: Physical Review Letters, Issue 123/1, 2019, ISSN 0031-9007
Publisher: American Physical Society
DOI: 10.1103/PhysRevLett.123.014502

A synthetic enzyme built from DNA flips 107 lipids per second in biological membranes

Author(s): Alexander Ohmann, Chen-Yu Li, Christopher Maffeo, Kareem Al Nahas, Kevin N. Baumann, Kerstin Göpfrich, Jejoong Yoo, Ulrich F. Keyser, Aleksei Aksimentiev
Published in: Nature Communications, Issue 9/1, 2018, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-018-04821-5

Density-Dependent Speed-up of Particle Transport in Channels

Author(s): Karolis Misiunas, Ulrich F. Keyser
Published in: Physical Review Letters, Issue 122/21, 2019, ISSN 0031-9007
Publisher: American Physical Society
DOI: 10.1103/PhysRevLett.122.214501

Promoting single-file DNA translocations through nanopores using electro-osmotic flow

Author(s): Niklas Ermann, Nikita Hanikel, Vivian Wang, Kaikai Chen, Nicole E. Weckman, Ulrich F. Keyser
Published in: The Journal of Chemical Physics, Issue 149/16, 2018, Page(s) 163311, ISSN 0021-9606
Publisher: American Institute of Physics
DOI: 10.1063/1.5031010

Specific Biosensing Using DNA Aptamers and Nanopores

Author(s): Jinglin Kong, Jinbo Zhu, Kaikai Chen, Ulrich F. Keyser
Published in: Advanced Functional Materials, Issue 29/3, 2019, Page(s) 1807555, ISSN 1616-301X
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/adfm.201807555

Experimental evidence of symmetry breaking of transition-path times

Author(s): J. Gladrow, M. Ribezzi-Crivellari, F. Ritort, U. F. Keyser
Published in: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-018-07873-9

Digital Data Storage Using DNA Nanostructures and Solid-State Nanopores

Author(s): Kaikai Chen, Jinglin Kong, Jinbo Zhu, Niklas Ermann, Paul Predki, Ulrich F. Keyser
Published in: Nano Letters, Issue 19/2, 2019, Page(s) 1210-1215, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.8b04715

Controlling aggregation of cholesterol-modified DNA nanostructures

Author(s): Alexander Ohmann, Kerstin Göpfrich, Himanshu Joshi, Rebecca F Thompson, Diana Sobota, Neil A Ranson, Aleksei Aksimentiev, Ulrich F Keyser
Published in: Nucleic Acids Research, Issue 47/21, 2019, Page(s) 11441-11451, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gkz914

Tailoring Interleaflet Lipid Transfer with a DNA-based Synthetic Enzyme

Author(s): Diana Sobota, Himanshu Joshi, Alexander Ohmann, Aleksei Aksimentiev, Ulrich F. Keyser
Published in: Nano Letters, Issue 20/6, 2020, Page(s) 4306-4311, ISSN 1530-6984
Publisher: American Chemical Society
DOI: 10.1021/acs.nanolett.0c00990

Image Encoding Using Multi‐Level DNA Barcodes with Nanopore Readout

Author(s): Jinbo Zhu; Niklas Ermann; Kaikai Chen; Ulrich F. Keyser
Published in: Crossref, Issue 2, 2021, ISSN 1613-6810
Publisher: Wiley - V C H Verlag GmbbH & Co.
DOI: 10.17863/cam.71444

DNA Structural Barcode Copying and Random Access

Author(s): Filip Bošković, Alexander Ohmann, Ulrich F. Keyser, Kaikai Chen
Published in: Small Structures, Issue 2/5, 2021, Page(s) 2000144, ISSN 2688-4062
Publisher: Wiley-VCH GmbH
DOI: 10.1002/sstr.202000144

Single molecule based SNP detection using designed DNA carriers and solid-state nanopores

Author(s): Kong, Jinglin; Zhu, Jinbo; Keyser, Ulrich F.
Published in: Chemical Communications, Issue 1, 2017, ISSN 1359-7345
Publisher: Royal Society of Chemistry
DOI: 10.17863/cam.7988

Channel-length dependence of particle diffusivity in confinement

Author(s): Soichiro Tottori, Karolis Misiunas, Vahe Tshitoyan, Ulrich F. Keyser
Published in: Soft Matter, Issue 17/20, 2021, Page(s) 5131-5136, ISSN 1744-683X
Publisher: Royal Society of Chemistry
DOI: 10.1039/d1sm00289a

Direction- and Salt-Dependent Ionic Current Signatures for DNA Sensing with Asymmetric Nanopores

Author(s): Kaikai Chen, Nicholas A.W. Bell, Jinglin Kong, Yu Tian, Ulrich F. Keyser
Published in: Biophysical Journal, Issue 112/4, 2017, Page(s) 674-682, ISSN 0006-3495
Publisher: Biophysical Society
DOI: 10.1016/j.bpj.2016.12.033