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

Jacob H Forstater1,2, Kyle Briggs3, Joseph W F Robertson1

  • 1Physical Measurement Laboratory, National Institute of Standards and Technology , Gaithersburg, Maryland 20899, United States.

Analytical Chemistry
|November 1, 2016
PubMed
Summary
This summary is machine-generated.

New software, Modular Single-Molecule Analysis Interface (MOSAIC), enhances nanopore analysis. Its ADEPT algorithm reveals novel DNA interactions and conductance states, improving precision medicine technologies.

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Area of Science:

  • Nanotechnology
  • Biophysics
  • Analytical Chemistry

Background:

  • Nanometer-scale pores in biological and solid-state systems are foundational for advanced analytical technologies.
  • Emerging applications in precision medicine rely on the precise measurement capabilities of nanopore devices.

Purpose of the Study:

  • To introduce Modular Single-Molecule Analysis Interface (MOSAIC), an open-source software designed to enhance the accuracy and throughput of nanopore measurements.
  • To present two novel algorithms, ADEPT and CUSUM+, integrated within MOSAIC for analyzing nanopore event data.

Main Methods:

  • Development of MOSAIC software featuring ADEPT and CUSUM+ algorithms.
  • ADEPT algorithm utilizes a physical nanopore model for short-lived, non-steady-state events.
  • CUSUM+ algorithm is an optimized cumulative sum method for analyzing longer events.

Main Results:

  • The ADEPT algorithm identified previously undocumented conductance states during double-stranded DNA translocation through a 2.4 nm solid-state nanopore.
  • New interactions between short single-stranded DNA and the vestibule of a biological nanopore were revealed using ADEPT.
  • MOSAIC and its ADEPT algorithm demonstrated improved analysis of nanopore-based measurements.

Conclusions:

  • MOSAIC provides a valuable new tool for the analysis of nanopore data.
  • The ADEPT algorithm significantly advances the characterization of molecular events within nanopores.
  • These advancements support the development of precision medicine through improved nanopore sensing technologies.