Nanopore Foundations & Signal Analysis

Nanopore Foundations & Signal Analysis. Recent publications parsed from OpenAlex.

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  1. Journal of Chemical Theory and Computation

    Improving All-Atom Molecular Dynamics Models for Quantitative Prediction of Nanopore Blockade Current

    Jingqian Liu, Crystal Rodriguez, Min Chen, Aleksei Aksimentiev

    Discovered via OpenAlex

    Preprint source: bioRxiv: Biophysics

    Curated by Nanopore Foundations & Signal Analysis · Preprint · Signal analysis · Signal modeling

  2. Nature

    Sequential reading of a stepwise-shortened peptide immobilized on nanopore

    Jialu Chen, Hanhan Zhang, Kefan Wang, Tian Li, Wen SUN, Zixuan Wang, Xinmeng Gao, Zhenyuan Cao, Yusheng Ouyang, Lang Yao, Yifan Wang, Yunqi Xiao, Ruidong Li, Xingwang An, Xinyi Dai, Lulu Zhao, Qian Lu, Panke Zhang, Shuo Huang

    Discovered via OpenAlex

    Curated by Nanopore Foundations & Signal Analysis · Protein analysis · Rereading · Sequential cleavage · Transient pore analyte looping

  3. Research Square

    High-Rate Fingerprinting of Protein Isoforms by Quasi-regulated Enzyme-free Transport Through CytK Nanopores

    Meni Wanunu, Amr K. Makhamreh, Ali Fallahi, Rik Dhar, Monika Kumari, Siddarth Krishnan, Michele Meseonznik, Luning Yu, Dinara Boyko, Keira Reich-Veillette, Yuhaohua Zheng, Elizabeth A. Libby, Aleksei Aksimentiev

    Discovered via OpenAlex

    Curated by Nanopore Foundations & Signal Analysis · Fingerprinting · Motor-free transport · Preprint · Protein analysis

  4. bioRxiv (Cold Spring Harbor Laboratory)

    A framework for peptide identification on commercial nanopore sequencing platforms

    Denis Beslic, Martin Kucklick, Eric Graap, Somayyeh Sedaghatjoo, Bernhard Y. Renard, Stephan Fuchs, Susanne Engelmann, Nils Körber

    Discovered via OpenAlex

    Preprint source: bioRxiv: Bioinformatics

    Curated by Nanopore Foundations & Signal Analysis · DNA-motor-driven transport · Identification · Preprint · Protein analysis

  5. Annual Review of Analytical Chemistry

    The Next Generation of Protein Sequencing and Analysis Methods

    K. C. Wong, Mattias Tolhurst, Oren A. Fox, Safwan Diwan, Nicholas Bogard, Jeff Nivala

    Discovered via OpenAlex

    Curated by Nanopore Foundations & Signal Analysis · Protein analysis · Review

  6. bioRxiv (Cold Spring Harbor Laboratory)

    Single-molecule identification of full-length proteins with single-amino-acid resolution using nanopores

    Andrea Bonini, Chunzhe Lu, Luca Mantovanelli, Roderick Corstiaan Abraham Versloot, Alwin Jansen, Peter O Connell Stack, Vasiliki Tsousi, Pascal Knecht, Kathrin Lang, Andrew Heron, Giovanni Maglia

    Discovered via OpenAlex

    Preprint source: bioRxiv: Biophysics

    Curated by Nanopore Foundations & Signal Analysis · Electroosmotic flow · Identification · Preprint · Protein analysis · Unfoldase-driven transport

  7. Nature Biotechnology

    Toward single-molecule protein sequencing using nanopores

    Chunzhe Lu, Andrea Bonini, Jakob H. Viel, Giovanni Maglia

    Curated by Nanopore Foundations & Signal Analysis · Protein analysis · Review

  8. Nature

    Multi-pass, single-molecule nanopore reading of long protein strands

    Keisuke Motone, Daphne Kontogiorgos-Heintz, Jasmine Wee, Kyoko Kurihara, Sangbeom Yang, Gwendolin Roote, Oren E Fox, Yishu Fang, Melissa Queen, Mattias Tolhurst, Nicolás Cardozo, Miten Jain, Jeff Nivala

    Curated by Nanopore Foundations & Signal Analysis · Landmark · Protein analysis · Rereading · Unfoldase-driven transport

  9. Nature Biotechnology

    Detection of phosphorylation post-translational modifications along single peptides with nanopores

    Ian C. Nova, Justas Ritmejeris, Henry D. Brinkerhoff, Theo J. R. Koenig, Jens H. Gundlach, Cees Dekker

    Curated by Nanopore Foundations & Signal Analysis · DNA-motor-driven transport · Post-translational modifications · Protein analysis

  10. Nature Biotechnology

    Unidirectional single-file transport of full-length proteins through a nanopore

    Luning Yu, Xinqi Kang, Fanjun Li, Behzad Mehrafrooz, Amr K. Makhamreh, Ali Fallahi, Joshua C. Foster, Aleksei Aksimentiev, Min Chen, Meni Wanunu

    Curated by Nanopore Foundations & Signal Analysis · Electroosmotic flow · Motor-free transport · Protein analysis

  11. Science

    Multiple rereads of single proteins at single–amino acid resolution using nanopores

    Henry D. Brinkerhoff, Albert S. W. Kang, Jingqian Liu, Aleksei Aksimentiev, Cees Dekker

    Curated by Nanopore Foundations & Signal Analysis · DNA-motor-driven transport · Protein analysis · Rereading · Variant discrimination

  12. Trends in Genetics

    Beyond sequencing: machine learning algorithms extract biology hidden in Nanopore signal data

    Yuk Kei Wan, Christopher Hendra, Ploy N. Pratanwanich, Jonathan Göke

    Curated by Nanopore Foundations & Signal Analysis · Review · Signal analysis

  13. GigaScience

    Chiron: translating nanopore raw signal directly into nucleotide sequence using deep learning

    Haotian Teng, Minh Duc Cao, Michael B. Hall, Tania P. S. Duarte, Sheng Wang, Lachlan Coin

    Curated by Nanopore Foundations & Signal Analysis · Basecalling · Connectionist temporal classification · Signal analysis

  14. PLoS ONE

    DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads

    Vladimír Boža, Broňa Brejová, Tomáš Vinař

    Curated by Nanopore Foundations & Signal Analysis · Basecalling · Recurrent neural networks · Signal analysis

  15. Nature Biotechnology

    Three decades of nanopore sequencing

    David W. Deamer, Mark A. Akeson, Daniel Branton

    Curated by Nanopore Foundations & Signal Analysis · Foundations · Review

  16. Bioinformatics

    Analysis of nanopore data using hidden Markov models

    Jacob Matthew Schreiber, Kevin J. Karplus

    Curated by Nanopore Foundations & Signal Analysis · Hidden Markov models · Signal analysis

  17. bioRxiv (Cold Spring Harbor Laboratory)

    Segmentation of Noisy Signals Generated By a Nanopore

    Jacob Matthew Schreiber, Kevin J. Karplus

    Curated by Nanopore Foundations & Signal Analysis · Preprint · Segmentation · Signal analysis

  18. ACS Nano

    Discrimination among Protein Variants Using an Unfoldase-Coupled Nanopore

    Jeff Nivala, Logan Mulroney, Gabriel Li, Jacob Matthew Schreiber, Mark A. Akeson

    Curated by Nanopore Foundations & Signal Analysis · Protein analysis · Unfoldase-driven transport · Variant discrimination

  19. Nature Biotechnology

    Unfoldase-mediated protein translocation through an α-hemolysin nanopore

    Jeff Nivala, Douglas B Marks, Mark A. Akeson

    Curated by Nanopore Foundations & Signal Analysis · Landmark · Protein analysis · Unfoldase-driven transport