Electric Single-Molecule Hybridization Detector for Short DNA Fragments

Loh, Amelia Y. Y.; Burgess, Claire H.; Tanase, Diana A.; Ferrari, Giorgio; McLachlan, Martyn A.; Cass, Anthony E. G.; Albrecht, Tim

doi:10.1021/acs.analchem.8b04357

Cited by 17 publications

(21 citation statements)

References 61 publications

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“…Recently, the use of molecular carriers has shown great promise to improve both selectivity and sensitivity and relies on binding biomarkers to a carrier backbone often made from DNA 11–14 . A multilevel current signal is measured, with the contribution of the bound biomarker being superimposed on the signal due to the translocated carrier.…”

Section: Introductionmentioning

confidence: 99%

Small molecule electro-optical binding assay using nanopores

Sze²,

et al. 2019

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The identification of short nucleic acids and proteins at the single molecule level is a major driving force for the development of novel detection strategies. Nanopore sensing has been gaining in prominence due to its label-free operation and single molecule sensitivity. However, it remains challenging to detect small molecules selectively. Here we propose to combine the electrical sensing modality of a nanopore with fluorescence-based detection. Selectivity is achieved by grafting either molecular beacons, complementary DNA, or proteins to a DNA molecular carrier. We show that the fraction of synchronised events between the electrical and optical channels, can be used to perform single molecule binding assays without the need to directly label the analyte. Such a strategy can be used to detect targets in complex biological fluids such as human serum and urine. Future optimisation of this technology may enable novel assays for quantitative protein detection as well as gene mutation analysis with applications in next-generation clinical sample analysis.

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Section: Introductionmentioning

confidence: 99%

Small molecule electro-optical binding assay using nanopores

Sze²,

et al. 2019

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“…Gambar 1. Fishbone Perak Sulfat (Ag2SO4) (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) Penelitian dilakukan dalam beberapa tahapan, yaitu (1) Analisis 2D molekul Ag2SO4 secara dua dimensi menggunakan ChemDraw 2D; (2) Analisis molekul (103,(115)(116)(117)(118)(119)(120)(121)(122)(123)(124) Ag2SO4, secara 3 dimensi menggunakan Chem 3D. Molekul Ag2SO4 dilukis dengan menggunakan ChemDraw dengan cara memilih Structure dan Convert Name to Structure.…”

Section: Sumberunclassified

“…Molekul Ag2SO4 dibuat dengan menggunakan Chemdraw 2D dan kemudian di pindahkan ke dalam bentuk 3 dimensi menggunakan Chem 3D. Proses ini dapat membantu melihat pola pergerakan molekul (103,(115)(116)(117)(118)(119)(120)(121)(122)(123)(124) secara optimal dan kemungkinan dinamika air selama berinteraksi (164)(165)(166)(167)(168)(169)(170)(171)(172) di lingkungan saat proses splitting berlangsung. Dengan bantuan Chem3D dapat dilihat bentuk surface dari molekul Ag2SO4.…”

Section: Analisis 3d Pada Molekul Ag2so4unclassified

SILVER SULFATE (Ag2SO4): MOLECULAR ANALYSIS AND ION TRANSPORT

Yurmaniati¹,

Zainul²

2018

Preprint

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Abstrak Perak sulfat merupakan garam anorganik dengan rumus Ag2SO4. Perak sulfat ini termasuk dalam senyawa ionic karena terdapat ikatan antara logam perak dengan spesi non logam sulfat. Perak sulfat memiliki. berat molekul yaitu 311,799 gr/mol dengan tampilan kristal tidak berwarna dan tidak mudah terbakar. Senyawa ini digunakan dalam penyepuhan perak (silver plating) dan pengganti tanpa noda untuk perak nitrat. Perak Sulfat mengalami interaksi molekul dalam pelarut Air. Tujuan penelitian ini adalah untuk mengetahui karakteristik molekul dan transpor ion Perak Sulfat. Metode yang digunakan dalam penelitian ini adalah penelusuran literatur dengan Endnote X7, pemodelan komputasi, dan perhitungan matematis. Data transpor ion Perak Sulfat yaitu dengan parameter konduktivitas, viskositas, mobilitas ion, dan daya hanyut menggunakan data hasil review beberapa jurnal penelitian yang berkaitan dengan Perak Sulfat sesuai tahapan pada fishbone. Secara termokimia, perak sulfat memiliki entalpi pembentukan standar, ΔfHo 298 -715 kJ/mol dan entropi molar standar, So298 16,74 kJ/mol. Kelarutan Perak Sulfat dalam air yaitu 0,79 gr/100 mL (20 o C) dan dapat larut juga dalam pelarut asam nitrat. Hasil penelitian konduktivitas larutan Ag2SO4 semakin meningkat seiring dengan kenaikan konsentrasi persen massa sesuai grafik hasil perhitungan. Energi optimasi MM2 Minimization, Optimasi MM2 Dynamics, dan Optimasi MM2 Properties berturut-turut yaitu 210. 2194 kcal/mol, 755. 377 kcal/mol, 216. 774 kcal/mol. Kecepatan hanyut molekul perak sulfat dengan potensial Ag2SO4 3,61 V dan jarak antara elektroda 1,5 cm yaitu 2, 407 V/cm. Kata kunci : Perak Sulfat, Interaksi molekul, Pemodelan I. IntroductionPerak sulfat (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) merupakan senyawa ion dari perak dengan rumus Ag2SO4, yang digunakan dalam penyepuhan perak (silver plating) dan pengganti tanpa noda untuk perak nitrat. Garam sulfat ini stabil di bawah kondisi penggunaan dan penyimpanan biasa, meskipun ia menjadi gelap pada pajanan terhadap udara atau cahaya. Perak Sulfat (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) mengalami interaksi molekul dalam pelarut Air. Berat molekul senyawa ini yaitu 311,799 gr/mol dengan tampilan kristal tidak berwarna. Kelarutannya dalam air 0,79 gr/100 mL (20 o C) dan dapat larut juga dalam pelarut asam nitrat. Secara termokimia, perak sulfat (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) memiliki entalpi pembentukan standar, ΔfHo298 -715 kJ/mol dan entropi molar standar, So298 16,74 kJ/mol. Perak sulfat (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) tidak mudah terbakar.Perak Sulfat (Ag2SO4) (11)(12)(13)(14)(15)(16)(17)(18)(19)(20)(21)(22) memiliki konduktivitas (1)(2)(3)(4)(5)(6)(7)(8)(9)(10) . Besarnya nilai konduktivitas (1-10) ditentukan oleh konsentrasi elektrolit. Muatan dalam senyawa dapat dibawa dalam bentuk electron seperti logam atau biasanya digunakan ion positif dan ion negative seperti dalam larutan elektrolit dan leburan garam. Aliran listrik dapat ditemukan dalam suatu larutan karena terdapat di ...

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“…Resistive-pulse sensing based on nanopores is utilised not only in the detection but increasingly in the study of substructure of single molecules 1,2 . Characterisation of molecular substructure relies on accurately identifying features within a translocation signal.…”

Section: Introductionmentioning

confidence: 99%

Bayesian inference for nanopore data analysis

Ermann,

Chen,

Keyser

2019

Preprint

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Nanopore sensors detect the substructure of individual molecules from modulations in an ion current as molecules pass through them. In this work, we present the classification of features in the substructure as a case study to illustrate the power of Bayesian inference when analysing nanopore data. A brief introductory section provides an overview of the core concepts, followed by a detailed description of the analysis procedure to facilitate other researchers to add Bayesian inference to their toolbox. Our hybrid approach of a classical peak-finding algorithm and Bayesian model comparison allows the probabilistic classification of features as "0" or "1" bits by calculating relative evidences for two competing models. We correctly classify on average ∼ 70% of bits for individual events and use the probabilistic nature of the approach to calculate a cumulative estimate with an accuracy of > 94%. The technique presented here is readily extensible to models of the translocation process which can take into account arbitrary molecular designs, our approach may therefore be used to analyse a wide range of features observed in nanopore experiments.

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Electric Single-Molecule Hybridization Detector for Short DNA Fragments

Cited by 17 publications

References 61 publications

Small molecule electro-optical binding assay using nanopores

Small molecule electro-optical binding assay using nanopores

SILVER SULFATE (Ag2SO4): MOLECULAR ANALYSIS AND ION TRANSPORT

Bayesian inference for nanopore data analysis

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