• Corpus ID: 15673808

DNA Sequencing via Quantum Mechanics and Machine Learning

@article{Yuen2010DNASV,
  title={DNA Sequencing via Quantum Mechanics and Machine Learning},
  author={Henry S. Yuen and Fuyuki Shimojo and Kevin J. Zhang and Ken‐ichi Nomura and Rajiv K. Kalia and Aiichiro Nakano and Priya Vashishta},
  journal={ArXiv},
  year={2010},
  volume={abs/1012.0900}
}
Rapid sequencing of individual human genome is prerequisite to genomic medicine, where diseases will be prevented by preemptive cures. [] Key Method We first combine principal component analysis (PCA) and fuzzy c-means (FCM) clustering to learn the "fingerprints" of the electronic density-of-states (DOS) of the four nucleotides, which can be derived from the I-V data.

Figures and Tables from this paper

Quantum Neurobiology

A new generation of bio-inspired quantum technologies in the emerging field of quantum neurobiology is discussed and a novel physics-inspired theory of neural signaling (AdS/Brain (anti-de Sitter space) is presented) for an improved understanding of the resolution of neuropathologies such as Alzheimer’s disease.

Towards the quantum-enabled technologies for development of drugs or delivery systems.

  • P. Hassanzadeh
  • Biology
    Journal of controlled release : official journal of the Controlled Release Society
  • 2020

References

SHOWING 1-10 OF 42 REFERENCES

Continuous base identification for single-molecule nanopore DNA sequencing.

It is shown that a protein nanopore with a covalently attached adapter molecule can continuously identify unlabelled nucleoside 5'-monophosphate molecules with accuracies averaging 99.8%.

Fast DNA sequencing via transverse electronic transport.

Estimates reveal that sequencing of an entire human genome could be done with very high accuracy in a matter of hours without parallelization, that is, orders of magnitude faster than present techniques.

Electronic structure of single DNA molecules resolved by transverse scanning tunnelling spectroscopy.

The energy spectrum of poly(G)-poly(C) DNA molecules deposited on gold is disclosed by using scanning tunnelling spectroscopy at cryogenic temperature and limited fluctuations in the I-V curves are observed and statistically characterized.

Partial sequencing of a single DNA molecule with a scanning tunnelling microscope.

This work reports single-molecule DNA sequencing with a scanning tunnelling microscope by using an oblique pulse-injection method to deposit the molecules onto a copper surface and shows that guanine bases have a distinct electronic state that allows them to be distinguished from the other nucleic acid bases.

The potential and challenges of nanopore sequencing

A nanopore-based device provides single-molecule detection and analytical capabilities that are achieved by electrophoretically driving molecules in solution through a nano-scale pore, a unique analytical capability that makes inexpensive, rapid DNA sequencing a possibility.

Influence of the environment and probes on rapid DNA sequencing via transverse electronic transport.

It is found that the intrinsic measurement bandwidth of the electrodes helps the detection of single bases by averaging over the current distributions of each base, and the intrinsic distinguishability of the bases is not significantly affected by pore size and transverse field strength.

Next-generation DNA sequencing methods.

  • E. Mardis
  • Biology
    Annual review of genomics and human genetics
  • 2008
An astounding potential exists for next-generation DNA sequencing technologies to bring enormous change in genetic and biological research and to enhance the authors' fundamental biological knowledge.

Transverse electronic transport in double-stranded DNA nucleotides.

The addition of Na or H positive counterions improves the signal levels, thus leading to a better discrimination, especially when sodium cations are added, and the transverse current through double-stranded DNA nucleotides is calculated.

HIDDEN MARKOV MODELS FOR DNA SEQUENCING

This paper model the state emission densities using Artificial Neural Networks, and provides a modified Baum-Welch re-estimation procedure to perform training, and develops a method that exploits consensus sequences to label training data, thus minimizing the need for hand-labeling.

The Sequence of the Human Genome

Comparative genomic analysis indicates vertebrate expansions of genes associated with neuronal function, with tissue-specific developmental regulation, and with the hemostasis and immune systems are indicated.