Nanopore sensing: A physical-chemical approach

Robertson, Joseph W. F.; Ghimire, Madhav; Reiner, Joseph E.

doi:10.1016/j.bbamem.2021.183644

Cited by 33 publications

(26 citation statements)

References 218 publications

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“…The current noise analysis represents one of the most fascinating developments of the nanopore‐based sensing technique used for the detection and characterization of biological molecules [17, 56]. Remarkably, the first hint on the fluctuation analysis of currents through ion channels as a potential means to observe the statistics and mechanics of polymer moving within the channel confined geometries came in the 1994 Bezrukov et al.…”

Section: Pegs In Protein Nanopore Researchmentioning

confidence: 99%

“…The current noise analysis represents one of the most fascinating developments of the nanopore-based sensing technique used for the detection and characterization of biological molecules [17,56].…”

Section: Fluctuation Analysismentioning

confidence: 99%

“…In addition, the first publications on polymer/pore interaction [5, 7], together with several additional early studies [13–15], formed the groundwork for the general technique, where current noise through open ion channels is used to detect and analyze small molecule and macromolecule entry and passage (reviewed in refs. [16, 17]).…”

Section: Introductionmentioning

confidence: 99%

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Probing protein nanopores with poly(ethylene glycol)s

Liu

Nestorovich

2022

Proteomics

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Neutral water‐soluble poly(ethylene glycol)s (PEGs) have been extensively explored in protein nanopore research for the past several decades. The principal use of PEGs is to investigate the membrane protein ion channel physical characteristics and transport properties. In addition, protein nanopores are used to study polymer–protein interactions and polymer physicochemical properties. In this review, we focus on the biophysical studies on probing protein ion channels with PEGs, specifically on nanopore sizing by PEG partitioning. We discuss the fluctuation analysis of ion channel currents in response to the PEGs moving within their confined geometries. The advantages, limitations, and recent developments of the approach are also addressed.

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Section: Pegs In Protein Nanopore Researchmentioning

confidence: 99%

Section: Fluctuation Analysismentioning

confidence: 99%

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Probing protein nanopores with poly(ethylene glycol)s

Liu

Nestorovich

2022

Proteomics

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“…It is conceivable that the ONT and PacBio platforms are unsuitable for measuring interstrand crosslinks because they are both sequencing single-stranded DNA. Therefore, efforts and developments are on the way to use wider pores to perform sequencing of double-stranded DNA [109][110][111]. Crosslinks of DNA to whole proteins will probably not work with this new technology.…”

Section: Single Molecule Dna Sequencingmentioning

confidence: 99%

Current and Future Methodology for Quantitation and Site-Specific Mapping the Location of DNA Adducts

Boysen

Nookaew

2022

Toxics

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Formation of DNA adducts is a key event for a genotoxic mode of action, and their presence is often used as a surrogate for mutation and increased cancer risk. Interest in DNA adducts are twofold: first, to demonstrate exposure, and second, to link DNA adduct location to subsequent mutations or altered gene regulation. Methods have been established to quantitate DNA adducts with high chemical specificity and to visualize the location of DNA adducts, and elegant bio-analytical methods have been devised utilizing enzymes, various chemistries, and molecular biology methods. Traditionally, these highly specific methods cannot be combined, and the results are incomparable. Initially developed for single-molecule DNA sequencing, nanopore-type technologies are expected to enable simultaneous quantitation and location of DNA adducts across the genome. Herein, we briefly summarize the current methodologies for state-of-the-art quantitation of DNA adduct levels and mapping of DNA adducts and describe novel single-molecule DNA sequencing technologies to achieve both measures. Emerging technologies are expected to soon provide a comprehensive picture of the exposome and identify gene regions susceptible to DNA adduct formation.

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“…The quintessential electrophysiological biosensor is a single pore‐forming protein, a nanopore, formed in a membrane separating two conductive fluid reservoirs. Electric fields are used to drive ionic current through the nanopore and fluctuations in the pore's conductance—called resistive pulses—are characterized to identify the analyte, monitor its membrane transport properties, detect chemical interactions, and measure the energetics of these interactions [1]. Nanopore biosensors are now routinely used to make measurements fundamental to biological processes (e.g., membrane transport processes) and are an emerging tool for peptide, protein and, with creative application of recognition elements, small molecule characterization.…”

Section: Introductionmentioning

confidence: 99%

Highlights on the current state of proteomic detection and characterization with nanopore sensors

Robertson

Reiner

2022

Proteomics

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We believe this entire collection presents a wide overview of topics that are of growing interest to the nanopore sensing community. We have focused this issue on both biosensing applications of nanopore detection and fundamental mechanisms underlying polymer-pore interactions. We have identified a variety of investigators active in these pursuits and we hope that this will help further motivate studies in these areas. We thank each of the authors for their efforts along with the reviewers for making this special issue a reality, and we hope you, the reader, will benefit from the studies reported herein.

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Nanopore sensing: A physical-chemical approach

Cited by 33 publications

References 218 publications

Probing protein nanopores with poly(ethylene glycol)s

Probing protein nanopores with poly(ethylene glycol)s

Current and Future Methodology for Quantitation and Site-Specific Mapping the Location of DNA Adducts

Highlights on the current state of proteomic detection and characterization with nanopore sensors

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