Literature DB >> 29595524

Protein sequencing via nanopore based devices: a nanofluidics perspective.

Mauro Chinappi1, Fabio Cecconi.   

Abstract

Proteins perform a huge number of central functions in living organisms, thus all the new techniques allowing their precise, fast and accurate characterization at single-molecule level certainly represent a burst in proteomics with important biomedical impact. In this review, we describe the recent progresses in the developing of nanopore based devices for protein sequencing. We start with a critical analysis of the main technical requirements for nanopore protein sequencing, summarizing some ideas and methodologies that have recently appeared in the literature. In the last sections, we focus on the physical modelling of the transport phenomena occurring in nanopore based devices. The multiscale nature of the problem is discussed and, in this respect, some of the main possible computational approaches are illustrated.

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Year:  2018        PMID: 29595524     DOI: 10.1088/1361-648X/aababe

Source DB:  PubMed          Journal:  J Phys Condens Matter        ISSN: 0953-8984            Impact factor:   2.333


  16 in total

Review 1.  Single-molecule protein sensing in a nanopore: a tutorial.

Authors:  Nitinun Varongchayakul; Jiaxi Song; Amit Meller; Mark W Grinstaff
Journal:  Chem Soc Rev       Date:  2018-11-26       Impact factor: 54.564

2.  Rapid and Accurate Determination of Nanopore Ionic Current Using a Steric Exclusion Model.

Authors:  James Wilson; Kumar Sarthak; Wei Si; Luyu Gao; Aleksei Aksimentiev
Journal:  ACS Sens       Date:  2019-03-13       Impact factor: 7.711

3.  Computational methods and theory for ion channel research.

Authors:  C Guardiani; F Cecconi; L Chiodo; G Cottone; P Malgaretti; L Maragliano; M L Barabash; G Camisasca; M Ceccarelli; B Corry; R Roth; A Giacomello; B Roux
Journal:  Adv Phys X       Date:  2022

Review 4.  Identification and Quantification of Proteoforms by Mass Spectrometry.

Authors:  Leah V Schaffer; Robert J Millikin; Rachel M Miller; Lissa C Anderson; Ryan T Fellers; Ying Ge; Neil L Kelleher; Richard D LeDuc; Xiaowen Liu; Samuel H Payne; Liangliang Sun; Paul M Thomas; Trisha Tucholski; Zhe Wang; Si Wu; Zhijie Wu; Dahang Yu; Michael R Shortreed; Lloyd M Smith
Journal:  Proteomics       Date:  2019-05       Impact factor: 3.984

Review 5.  Strategies for Development of a Next-Generation Protein Sequencing Platform.

Authors:  Nicholas Callahan; Jennifer Tullman; Zvi Kelman; John Marino
Journal:  Trends Biochem Sci       Date:  2019-10-30       Impact factor: 13.807

Review 6.  Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes.

Authors:  Patrick A Leggieri; Yiyi Liu; Madeline Hayes; Bryce Connors; Susanna Seppälä; Michelle A O'Malley; Ophelia S Venturelli
Journal:  Annu Rev Biomed Eng       Date:  2021-03-29       Impact factor: 9.590

7.  Insights into protein sequencing with an α-Hemolysin nanopore by atomistic simulations.

Authors:  Giovanni Di Muccio; Aldo Eugenio Rossini; Daniele Di Marino; Giuseppe Zollo; Mauro Chinappi
Journal:  Sci Rep       Date:  2019-04-23       Impact factor: 4.379

8.  FraC nanopores with adjustable diameter identify the mass of opposite-charge peptides with 44 dalton resolution.

Authors:  Gang Huang; Arnout Voet; Giovanni Maglia
Journal:  Nat Commun       Date:  2019-02-19       Impact factor: 14.919

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

Authors:  Shilo Ohayon; Arik Girsault; Maisa Nasser; Shai Shen-Orr; Amit Meller
Journal:  PLoS Comput Biol       Date:  2019-05-30       Impact factor: 4.779

Review 10.  Beyond mass spectrometry, the next step in proteomics.

Authors:  Winston Timp; Gregory Timp
Journal:  Sci Adv       Date:  2020-01-10       Impact factor: 14.136

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