A Guide to Signal Processing Algorithms for Nanopore Sensors

Deep learning for nanopore ionic current blockades

(2021) Ángel Díaz Carral et al.   JOURNAL OF CHEMICAL PHYSICS

Synthetic heparan sulfate standards and machine learning facilitate the development of solid-state nanopore analysis

(2021) Ke Xia et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deep Learning‐Enhanced Nanopore Sensing of Single‐Nanoparticle Translocation Dynamics

(2021) Makusu Tsutsui et al.   Small Methods

Deep Learning of Nanopore Sensing Signals Using a Bi-Path Network

(2021) Dario Dematties et al.   ACS Nano

Discrimination of α-Thrombin and γ-Thrombin Using Aptamer-Functionalized Nanopore Sensing

(2021) Lucile Reynaud et al.   ANALYTICAL CHEMISTRY

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Multiplexed direct detection of barcoded protein reporters on a nanopore array

(2021) Nicolas Cardozo et al.   NATURE BIOTECHNOLOGY

Combining machine learning and nanopore construction creates an artificial intelligence nanopore for coronavirus detection

(2021) Masateru Taniguchi et al.   Nature Communications

Preparing Medical Imaging Data for Machine Learning

(2020) Martin J. Willemink et al.   RADIOLOGY

Combination of Single-Molecule Electrical Measurements and Machine Learning for the Identification of Single Biomolecules

(2020) Masateru Taniguchi   ACS Omega

Application of Solid-State Nanopore in Protein Detection

(2020) Yuhan Luo et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

N-Terminal Derivatization-Assisted Identification of Individual Amino Acids Using a Biological Nanopore Sensor

(2020) Xiaojun Wei et al.   ACS Sensors

Fourier Transform Induced Data Process for Label-free Selective Nanopore Analysis under Sinusoidal Voltage Excitations

(2020) Xuye Liu et al.   ANALYTICAL CHEMISTRY

Fundamentals and potentials of solid-state nanopores: a review

(2020) Chenyu Wen et al.   JOURNAL OF PHYSICS D-APPLIED PHYSICS

Machine learning-driven electronic identifications of single pathogenic bacteria

(2020) Shota Hattori et al.   Scientific Reports

Machine Learning to Improve the Sensing of Biomolecules by Conical Track-Etched Nanopore

(2020) Nathan Meyer et al.   Biosensors-Basel

Solid-State Nanopore Platform Integrated with Machine Learning for Digital Diagnosis of Virus Infection

(2020) Akihide Arima et al.   ANALYTICAL CHEMISTRY

Recent progress on nanopore electrochemistry and advanced data processing

(2020) Hui Ma et al.   Current Opinion in Electrochemistry

Signal Processing for Single Biomolecule Identification Using Nanopores: A Review

(2020) Naren Das et al.   IEEE SENSORS JOURNAL

Wavelet Denoising of High-Bandwidth Nanopore and Ion-Channel Signals

(2019) Siddharth Shekar et al.   NANO LETTERS

Small-Molecule Permeation across Membrane Channels: Chemical Modification to Quantify Transport across OmpF

(2019) Jiajun Wang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Single Molecule Identification and Quantification of Glycosaminoglycans using Solid State Nanopores

(2019) JongOne Im et al.   ACS Nano

Estimation of Shape, Volume, and Dipole Moment of Individual Proteins Freely Transiting a Synthetic Nanopore

(2019) Jared Houghtaling et al.   ACS Nano

Learning shapelets for improving the single-molecule nanopore sensing

(2019) Zi-Xuan Wei et al.   ANALYTICAL CHEMISTRY

Simulation of single-protein nanopore sensing shows feasibility for whole-proteome identification

(2019) Shilo Ohayon et al.   PLoS Computational Biology

High-Precision Single-Molecule Identification Based on Single-Molecule Information within a Noisy Matrix

(2019) Masateru Taniguchi et al.   Journal of Physical Chemistry C

Rectification of protein translocation in truncated pyramidal nanopores

(2019) Shuangshuang Zeng et al.   Nature Nanotechnology

Solid-State Nanopore Time-of-Flight Mass Spectrometer

(2019) Makusu Tsutsui et al.   ACS Sensors

Recognition Tunneling of Canonical and Modified RNA Nucleotides for Their Identification with the Aid of Machine Learning

(2018) JongOne Im et al.   ACS Nano

Identification of Individual Bacterial Cells through the Intermolecular Interactions with Peptide-Functionalized Solid-State Pores

(2018) Makusu Tsutsui et al.   ANALYTICAL CHEMISTRY

QuipuNet: Convolutional Neural Network for Single-Molecule Nanopore Sensing

(2018) Karolis Misiunas et al.   NANO LETTERS

Nanopore-Based, Rapid Characterization of Individual Amyloid Particles in Solution: Concepts, Challenges, and Prospects

(2018) Jared Houghtaling et al.   Small

Identification of Spherical and Nonspherical Proteins by a Solid-State Nanopore

(2018) Jingjie Sha et al.   ANALYTICAL CHEMISTRY

Intelligent Quantification of Picomolar Protein Concentration in Serum by Functionalized Nanopores

(2018) Naren Das et al.   IEEE SENSORS JOURNAL

Identifying Single Viruses Using Biorecognition Solid-State Nanopores

(2018) Akihide Arima et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Direct electrical quantification of glucose and asparagine from bodily fluids using nanopores

(2018) Nicole Stéphanie Galenkamp et al.   Nature Communications

Selective detections of single-viruses using solid-state nanopores

(2018) Akihide Arima et al.   Scientific Reports

High-bandwidth nanopore data analysis by using a modified hidden Markov model

(2017) Jianhua Zhang et al.   Nanoscale

Deep learning for single-molecule science

(2017) Tim Albrecht et al.   NANOTECHNOLOGY

Single-molecule protein identification by sub-nanopore sensors

(2017) Mikhail Kolmogorov et al.   PLoS Computational Biology

Unsupervised Idealization of Ion Channel Recordings by Minimum Description Length: Application to Human PIEZO1-Channels

(2017) Radhakrishnan Gnanasambandam et al.   Frontiers in Neuroinformatics

A brief introduction to weakly supervised learning

(2017) Zhi-Hua Zhou   National Science Review

Generalized Noise Study of Solid-State Nanopores at Low Frequencies

(2017) Chenyu Wen et al.   ACS Sensors

Discriminating single-bacterial shape using low-aspect-ratio pores

(2017) Makusu Tsutsui et al.   Scientific Reports

Universal Readers Based on Hydrogen Bonding or π–π Stacking for Identification of DNA Nucleotides in Electron Tunnel Junctions

(2016) Sovan Biswas et al.   ACS Nano

MOSAIC: A Modular Single-Molecule Analysis Interface for Decoding Multistate Nanopore Data

(2016) Jacob H. Forstater et al.   ANALYTICAL CHEMISTRY

Single-molecule analysis of lead(II)-binding aptamer conformational changes in an α-hemolysin nanopore, and sensitive detection of lead(II)

(2016) Hai-Yan Wang et al.   MICROCHIMICA ACTA

Three decades of nanopore sequencing

(2016) David Deamer et al.   NATURE BIOTECHNOLOGY

Real-time shape approximation and fingerprinting of single proteins using a nanopore

(2016) Erik C. Yusko et al.   Nature Nanotechnology

Electronic single-molecule identification of carbohydrate isomers by recognition tunnelling

(2016) JongOne Im et al.   Nature Communications

Correction to Quantifying Short-Lived Events in Multistate Ionic Channel Measurements

(2015) Arvind Balijepalli et al.   ACS Nano

Accurate Data Process for Nanopore Analysis

(2015) Zhen Gu et al.   ANALYTICAL CHEMISTRY

Reply to Comment on Accurate Data Process for Nanopore Analysis

(2015) Zhen Gu et al.   ANALYTICAL CHEMISTRY

Comment on Accurate Data Process for Nanopore Analysis

(2015) William B. Dunbar   ANALYTICAL CHEMISTRY

Analysis of nanopore data using hidden Markov models

(2015) Jacob Schreiber et al.   BIOINFORMATICS

Data analysis methods for solid-state nanopores

(2015) Calin Plesa et al.   NANOTECHNOLOGY

Deep learning

(2015) Yann LeCun et al.   NATURE

Quantifying Short-Lived Events in Multistate Ionic Current Measurements

(2014) Arvind Balijepalli et al.   ACS Nano

High-Bandwidth Protein Analysis Using Solid-State Nanopores

(2014) Joseph Larkin et al.   BIOPHYSICAL JOURNAL

An integrated software system for analyzing nanopore data

(2014) Na Zhang et al.   CHINESE SCIENCE BULLETIN

Gold Nanorod Translocations and Charge Measurement through Solid-State Nanopores

(2014) Kimberly E. Venta et al.   NANO LETTERS

Single-molecule spectroscopy of amino acids and peptides by recognition tunnelling

(2014) Yanan Zhao et al.   Nature Nanotechnology

Gold Nanoparticle Translocation Dynamics and Electrical Detection of Single Particle Diffusion Using Solid-State Nanopores

(2013) Gaurav Goyal et al.   ANALYTICAL CHEMISTRY

Self-labeled techniques for semi-supervised learning: taxonomy, software and empirical study

(2013) Isaac Triguero et al.   KNOWLEDGE AND INFORMATION SYSTEMS

Fast and automatic processing of multi-level events in nanopore translocation experiments

(2012) C. Raillon et al.   Nanoscale

Stochastic sensing of proteins with receptor-modified solid-state nanopores

(2012) Ruoshan Wei et al.   Nature Nanotechnology

Nanoparticle Transport in Conical-Shaped Nanopores

(2011) Wen-Jie Lan et al.   ANALYTICAL CHEMISTRY

Controlling protein translocation through nanopores with bio-inspired fluid walls

(2011) Erik C. Yusko et al.   Nature Nanotechnology

Data Analysis of Translocation Events in Nanopore Experiments

(2009) Daniel Pedone et al.   ANALYTICAL CHEMISTRY

Single-Molecule Protein Unfolding in Solid State Nanopores

(2009) David S. Talaga et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Wavelet transform-based methods for denoising of Coulter counter signals

(2008) Ashish V Jagtiani et al.   MEASUREMENT SCIENCE and TECHNOLOGY