1
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Xie ZP, Liu SM, Zhai YM. Study on the Self-assembly and Signal Amplification Ability of Nucleic Acid Nanostructure with the Nanopipette. J Electroanal Chem (Lausanne) 2022. [DOI: 10.1016/j.jelechem.2022.116307] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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2
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Sun L, Shigyou K, Ando T, Watanabe S. Thermally Driven Approach To Fill Sub-10-nm Pipettes with Batch Production. Anal Chem 2019; 91:14080-14084. [PMID: 31589026 DOI: 10.1021/acs.analchem.9b03848] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Typically, utilization of small nanopipettes results in either high sensitivity or spatial resolution in modern nanoscience and nanotechnology. However, filling a nanopipette with a sub-10-nm pore diameter remains a significant challenge. Here, we introduce a thermally driven approach to filling sub-10-nm pipettes with batch production, regardless of their shape. A temperature gradient is applied to transport water vapor from the backside of nanopipettes to the tip region until bubbles are completely removed from this region. The electrical contact and pore size for filling nanopipettes are confirmed by current-voltage and transmission electron microscopy (TEM) measurements, respectively. In addition, we quantitatively compare the pore size between the TEM characterization and estimation on the basis of pore radius and conductance. The validity of this method provides a foundation for highly sensitive detection of single molecules and high spatial resolution imaging of nanostructures.
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Affiliation(s)
- Linhao Sun
- Nano Life Science Institute (WPI-NanoLSI) , Kanazawa University , Kakuma-machi , Kanazawa 920-1192 , Japan
| | - Kazuki Shigyou
- Nano Life Science Institute (WPI-NanoLSI) , Kanazawa University , Kakuma-machi , Kanazawa 920-1192 , Japan
| | - Toshio Ando
- Nano Life Science Institute (WPI-NanoLSI) , Kanazawa University , Kakuma-machi , Kanazawa 920-1192 , Japan
| | - Shinji Watanabe
- Nano Life Science Institute (WPI-NanoLSI) , Kanazawa University , Kakuma-machi , Kanazawa 920-1192 , Japan
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3
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Albrecht T. Single-Molecule Analysis with Solid-State Nanopores. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2019; 12:371-387. [PMID: 30707594 DOI: 10.1146/annurev-anchem-061417-125903] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Solid-state nanopores and nanopipettes are an exciting class of single-molecule sensors that has grown enormously over the last two decades. They offer a platform for testing fundamental concepts of stochasticity and transport at the nanoscale, for studying single-molecule biophysics and, increasingly, also for new analytical applications and in biomedical sensing. This review covers some fundamental aspects underpinning sensor operation and transport and, at the same time, it aims to put these into context as an analytical technique. It highlights new and recent developments and discusses some of the challenges lying ahead.
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Affiliation(s)
- Tim Albrecht
- School of Chemistry, University of Birmingham, Birmingham B15 2TT, United Kingdom;
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4
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Xue L, Cadinu P, Paulose Nadappuram B, Kang M, Ma Y, Korchev Y, Ivanov AP, Edel JB. Gated Single-Molecule Transport in Double-Barreled Nanopores. ACS APPLIED MATERIALS & INTERFACES 2018; 10:38621-38629. [PMID: 30360085 PMCID: PMC6243394 DOI: 10.1021/acsami.8b13721] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Single-molecule methods have been rapidly developing with the appealing prospect of transforming conventional ensemble-averaged analytical techniques. However, challenges remain especially in improving detection sensitivity and controlling molecular transport. In this article, we present a direct method for the fabrication of analytical sensors that combine the advantages of nanopores and field-effect transistors for simultaneous label-free single-molecule detection and manipulation. We show that these hybrid sensors have perfectly aligned nanopores and field-effect transistor components making it possible to detect molecular events with up to near 100% synchronization. Furthermore, we show that the transport across the nanopore can be voltage-gated to switch on/off translocations in real time. Finally, surface functionalization of the gate electrode can also be used to fine tune transport properties enabling more active control over the translocation velocity and capture rates.
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Affiliation(s)
- Liang Xue
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
| | - Paolo Cadinu
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
| | | | - Minkyung Kang
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
| | - Ye Ma
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
| | - Yuri Korchev
- Department
of Medicine, Imperial College London, London W12 0NN, U.K.
| | - Aleksandar P. Ivanov
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
- E-mail: (A.P.I)
| | - Joshua B. Edel
- Department of Chemistry, Imperial College London, Exhibition Road, London SW7 2AZ, U.K.
- E-mail: (J.B.E.)
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5
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Fraccari RL, Carminati M, Piantanida G, Leontidou T, Ferrari G, Albrecht T. High-bandwidth detection of short DNA in nanopipettes. Faraday Discuss 2018; 193:459-470. [PMID: 27711887 DOI: 10.1039/c6fd00109b] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Glass or quartz nanopipettes have found increasing use as tools for studying the biophysical properties of DNA and proteins, and as sensor devices. The ease of fabrication, favourable wetting properties and low capacitance are some of the inherent advantages, for example compared to more conventional, silicon-based nanopore chips. Recently, we have demonstrated high-bandwidth detection of double-stranded (ds) DNA with microsecond time resolution in nanopipettes, using custom-designed electronics. The electronics design has now been refined to include more sophisticated control features, such as integrated bias reversal and other features. Here, we exploit these capabilities and probe the translocation of short dsDNA in the 100 bp range, in different electrolytes. Single-stranded (ss) DNA of similar length are in use as capture probes, so label-free detection of their ds counterparts could therefore be of relevance in disease diagnostics.
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Affiliation(s)
- Raquel L Fraccari
- Imperial College London, Department of Chemistry, Exhibition, Road, London SW7 2AZ, UK.
| | - Marco Carminati
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za, Leonardo da Vinci 32, Milano, Italy
| | - Giacomo Piantanida
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za, Leonardo da Vinci 32, Milano, Italy
| | - Tina Leontidou
- Imperial College London, Department of Chemistry, Exhibition, Road, London SW7 2AZ, UK.
| | - Giorgio Ferrari
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za, Leonardo da Vinci 32, Milano, Italy
| | - Tim Albrecht
- Imperial College London, Department of Chemistry, Exhibition, Road, London SW7 2AZ, UK.
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6
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Affiliation(s)
- Mukhil Raveendran
- Pollard Institute School of Electronic and Electrical EngineeringUniversity of Leeds Leeds United Kingdom
| | - Andrew J. Lee
- Pollard Institute School of Electronic and Electrical EngineeringUniversity of Leeds Leeds United Kingdom
| | - Christoph Wälti
- Pollard Institute School of Electronic and Electrical EngineeringUniversity of Leeds Leeds United Kingdom
| | - Paolo Actis
- Pollard Institute School of Electronic and Electrical EngineeringUniversity of Leeds Leeds United Kingdom
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7
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Abstract
Droplet microfluidic systems have evolved as fluidic platforms that use much less sample volume and provide high throughput for biochemical analysis compared to conventional microfluidic devices. The variety of droplet fluidic applications triggered several detection techniques to be applied for analysis of droplets. In this review, we focus on label-free droplet detection techniques that were adapted to various droplet microfluidic platforms. We provide a classification of most commonly used droplet platform technologies. Then we discuss the examples of various label-free droplet detection schemes implemented for these platforms. While providing the research landscape for label-free droplet detection methods, we aim to highlight the strengths and shortcomings of each droplet platform so that a more targeted approach can be taken by researchers when selecting a droplet platform and a detection scheme for any given application.
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8
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Fraccari RL, Ciccarella P, Bahrami A, Carminati M, Ferrari G, Albrecht T. High-speed detection of DNA translocation in nanopipettes. NANOSCALE 2016; 8:7604-7611. [PMID: 26985713 DOI: 10.1039/c5nr08634e] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
We present a high-speed electrical detection scheme based on a custom-designed CMOS amplifier which allows the analysis of DNA translocation in glass nanopipettes on a microsecond timescale. Translocation of different DNA lengths in KCl electrolyte provides a scaling factor of the DNA translocation time equal to p = 1.22, which is different from values observed previously with nanopipettes in LiCl electrolyte or with nanopores. Based on a theoretical model involving electrophoresis, hydrodynamics and surface friction, we show that the experimentally observed range of p-values may be the result of, or at least be affected by DNA adsorption and friction between the DNA and the substrate surface.
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Affiliation(s)
- Raquel L Fraccari
- Imperial College London, Department of Chemistry, Exhibition Road, London SW7 2AZ, UK.
| | - Pietro Ciccarella
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za Leonardo da Vinci 32, Milano, Italy
| | - Azadeh Bahrami
- Imperial College London, Department of Chemistry, Exhibition Road, London SW7 2AZ, UK.
| | - Marco Carminati
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za Leonardo da Vinci 32, Milano, Italy
| | - Giorgio Ferrari
- Politecnico di Milano, Dipartimento di Elettronica, Informazione e Bioingegneria, P.za Leonardo da Vinci 32, Milano, Italy
| | - Tim Albrecht
- Imperial College London, Department of Chemistry, Exhibition Road, London SW7 2AZ, UK.
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9
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Boken J, Soni SK, Kumar D. Microfluidic Synthesis of Nanoparticles and their Biosensing Applications. Crit Rev Anal Chem 2016; 46:538-61. [DOI: 10.1080/10408347.2016.1169912] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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10
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Kudr J, Skalickova S, Nejdl L, Moulick A, Ruttkay-Nedecky B, Adam V, Kizek R. Fabrication of solid-state nanopores and its perspectives. Electrophoresis 2015; 36:2367-79. [DOI: 10.1002/elps.201400612] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2014] [Accepted: 05/13/2015] [Indexed: 11/09/2022]
Affiliation(s)
- Jiri Kudr
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Sylvie Skalickova
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Lukas Nejdl
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Amitava Moulick
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Branislav Ruttkay-Nedecky
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Vojtech Adam
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
| | - Rene Kizek
- Department of Chemistry and Biochemistry, Faculty of Agronomy; Mendel University in Brno; Brno Czech Republic
- Central European Institute of Technology; Brno University of Technology; Brno Czech Republic
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11
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Rutkowska A, Freedman K, Skalkowska J, Kim MJ, Edel JB, Albrecht T. Electrodeposition and Bipolar Effects in Metallized Nanopores and Their Use in the Detection of Insulin. Anal Chem 2015; 87:2337-44. [DOI: 10.1021/ac504463r] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Agnieszka Rutkowska
- Department
of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London, United Kingdom
| | - Kevin Freedman
- Department
of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London, United Kingdom
- Department
of Chemical and Biological Engineering, Drexel University, Philadelphia, Pennsylvania 19104, United States
| | - Justyna Skalkowska
- Department
of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London, United Kingdom
- Department
of Chemistry, Warsaw University of Technology, Noakowskiego 3, 00-664 Warsaw, Poland
| | - Min Jun Kim
- Department
of Mechanical Engineering and Mechanics, Drexel University, Philadelphia, Pennsylvania 19104, United States
| | - Joshua B. Edel
- Department
of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London, United Kingdom
| | - Tim Albrecht
- Department
of Chemistry, Imperial College London, South Kensington, SW7 2AZ, London, United Kingdom
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12
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Ivanov AP, Actis P, Jönsson P, Klenerman D, Korchev Y, Edel JB. On-demand delivery of single DNA molecules using nanopipets. ACS NANO 2015; 9:3587-95. [PMID: 25794527 DOI: 10.1021/acsnano.5b00911] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Understanding the behavioral properties of single molecules or larger scale populations interacting with single molecules is currently a hotly pursued topic in nanotechnology. This arises from the potential such techniques have in relation to applications such as targeted drug delivery, early stage detection of disease, and drug screening. Although label and label-free single molecule detection strategies have existed for a number of years, currently lacking are efficient methods for the controllable delivery of single molecules in aqueous environments. In this article we show both experimentally and from simulations that nanopipets in conjunction with asymmetric voltage pulses can be used for label-free detection and delivery of single molecules through the tip of a nanopipet with "on-demand" timing resolution. This was demonstrated by controllable delivery of 5 kbp and 10 kbp DNA molecules from solutions with concentrations as low as 3 pM.
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Affiliation(s)
- Aleksandar P Ivanov
- †Department of Chemistry, Imperial College London, London SW7 2AZ, United Kingdom
| | - Paolo Actis
- ‡Department of Medicine, Imperial College London, London W12 0NN, United Kingdom
| | - Peter Jönsson
- §Department of Chemistry, Lund University, Lund SE-221 00, Sweden
- ∥Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
| | - David Klenerman
- ∥Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
| | - Yuri Korchev
- ‡Department of Medicine, Imperial College London, London W12 0NN, United Kingdom
| | - Joshua B Edel
- †Department of Chemistry, Imperial College London, London SW7 2AZ, United Kingdom
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13
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Sze JYY, Kumar S, Ivanov AP, Oh SH, Edel JB. Fine tuning of nanopipettes using atomic layer deposition for single molecule sensing. Analyst 2015; 140:4828-34. [DOI: 10.1039/c5an01001b] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
ALD modified pipettes provides a quick and efficient method for fine-tuning the nanopore diameter which can be used for a broad range of applications including the detection of small biomolecules at the single molecule level.
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Affiliation(s)
| | - Shailabh Kumar
- Department of Biomedical Engineering
- University of Minnesota
- Minneapolis
- USA
- Department of Electrical and Computer engineering
| | | | - Sang-Hyun Oh
- Department of Biomedical Engineering
- University of Minnesota
- Minneapolis
- USA
- Department of Electrical and Computer engineering
| | - Joshua B. Edel
- Department of Chemistry
- Imperial College London
- London SW7 2AZ
- UK
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14
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Steinbock LJ, Krishnan S, Bulushev RD, Borgeaud S, Blokesch M, Feletti L, Radenovic A. Probing the size of proteins with glass nanopores. NANOSCALE 2014; 6:14380-14387. [PMID: 25329813 DOI: 10.1039/c4nr05001k] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Single molecule studies using nanopores have gained attention due to the ability to sense single molecules in aqueous solution without the need to label them. In this study, short DNA molecules and proteins were detected with glass nanopores, whose sensitivity was enhanced by electron reshaping which decreased the nanopore diameter and created geometries with a reduced sensing length. Further, proteins having molecular weights (MW) ranging from 12 kDa to 480 kDa were detected, which showed that their corresponding current peak amplitude changes according to their MW. In the case of the 12 kDa ComEA protein, its DNA-binding properties to an 800 bp long DNA molecule was investigated. Moreover, the influence of the pH on the charge of the protein was demonstrated by showing a change in the translocation direction. This work emphasizes the wide spectrum of detectable molecules using nanopores from glass nanocapillaries, which stand out because of their inexpensive, lithography-free, and rapid manufacturing process.
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Affiliation(s)
- L J Steinbock
- Laboratory of Nanoscale Biology, Institute of Bioengineering, School of Engineering, EPFL, 1015 Lausanne, Switzerland.
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15
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Tiwari PB, Astudillo L, Miksovska J, Wang X, Li W, Darici Y, He J. Quantitative study of protein-protein interactions by quartz nanopipettes. NANOSCALE 2014; 6:10255-10263. [PMID: 25060094 DOI: 10.1039/c4nr02964j] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
In this report, protein-modified quartz nanopipettes were used to quantitatively study protein-protein interactions in attoliter sensing volumes. As shown by numerical simulations, the ionic current through the conical-shaped nanopipette is very sensitive to the surface charge variation near the pore mouth. With the appropriate modification of negatively charged human neuroglobin (hNgb) onto the inner surface of a nanopipette, we were able to detect concentration-dependent current change when the hNgb-modified nanopipette tip was exposed to positively charged cytochrome c (Cyt c) with a series of concentrations in the bath solution. Such current change is due to the adsorption of Cyt c to the inner surface of the nanopipette through specific interactions with hNgb. In contrast, a smaller current change with weak concentration dependence was observed when Cyt c was replaced with lysozyme, which does not specifically bind to hNgb. The equilibrium dissociation constant (KD) for the Cyt c-hNgb complex formation was derived and the value matched very well with the result from surface plasmon resonance measurement. This is the first quantitative study of protein-protein interactions by a conical-shaped nanopore based on charge sensing. Our results demonstrate that nanopipettes can potentially be used as a label-free analytical tool to quantitatively characterize protein-protein interactions.
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