Studying Viral Populations with Tools from Quantum Spin Chains

Saumya Shivam; Christopher L. Baldwin; John Barton; Mehran Kardar; S. L. Sondhi

doi:10.1007/s10955-021-02716-2

Studying Viral Populations with Tools from Quantum Spin Chains

Saumya Shivam, Christopher L. Baldwin, John Barton, Mehran Kardar, S. L. Sondhi

Research output: Contribution to journal › Article › peer-review

Abstract

We study Eigen’s model of quasi-species (Eigen in Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58(10):465, 1971), characterized by sequences that replicate with a specified fitness and mutate independently at single sites. The evolution of the population vector in time is then closely related to that of quantum spins in imaginary time. We employ multiple perspectives and tools from interacting quantum systems to examine growth and collapse of realistic viral populations, specifically considering excessive mutations in certain HIV proteins. All approaches used, including the simplest perturbation theory, give consistent results.

Original language	English (US)
Article number	38
Journal	Journal of Statistical Physics
Volume	182
Issue number	2
DOIs	https://doi.org/10.1007/s10955-021-02716-2
State	Published - Feb 2021

All Science Journal Classification (ASJC) codes

Statistical and Nonlinear Physics
Mathematical Physics

Keywords

Biological evolution
HIV
Quantum spin chains

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10.1007/s10955-021-02716-2

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title = "Studying Viral Populations with Tools from Quantum Spin Chains",

abstract = "We study Eigen{\textquoteright}s model of quasi-species (Eigen in Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58(10):465, 1971), characterized by sequences that replicate with a specified fitness and mutate independently at single sites. The evolution of the population vector in time is then closely related to that of quantum spins in imaginary time. We employ multiple perspectives and tools from interacting quantum systems to examine growth and collapse of realistic viral populations, specifically considering excessive mutations in certain HIV proteins. All approaches used, including the simplest perturbation theory, give consistent results.",

keywords = "Biological evolution, HIV, Quantum spin chains",

author = "Saumya Shivam and Baldwin, {Christopher L.} and John Barton and Mehran Kardar and Sondhi, {S. L.}",

note = "Funding Information: The authors would like to thank the Galileo Galilei Institute in Florence, Italy where a part of this work was performed. This research was performed while CLB held an NRC Research Associateship award at the National Institute of Standards and Technology. MK is supported by NSF through Grant No. DMR-1708280. Publisher Copyright: {\textcopyright} 2021, The Author(s), under exclusive licence to Springer Science+Business Media, LLC part of Springer Nature.",

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doi = "10.1007/s10955-021-02716-2",

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AU - Barton, John

AU - Kardar, Mehran

AU - Sondhi, S. L.

N1 - Funding Information: The authors would like to thank the Galileo Galilei Institute in Florence, Italy where a part of this work was performed. This research was performed while CLB held an NRC Research Associateship award at the National Institute of Standards and Technology. MK is supported by NSF through Grant No. DMR-1708280. Publisher Copyright: © 2021, The Author(s), under exclusive licence to Springer Science+Business Media, LLC part of Springer Nature.

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N2 - We study Eigen’s model of quasi-species (Eigen in Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58(10):465, 1971), characterized by sequences that replicate with a specified fitness and mutate independently at single sites. The evolution of the population vector in time is then closely related to that of quantum spins in imaginary time. We employ multiple perspectives and tools from interacting quantum systems to examine growth and collapse of realistic viral populations, specifically considering excessive mutations in certain HIV proteins. All approaches used, including the simplest perturbation theory, give consistent results.

AB - We study Eigen’s model of quasi-species (Eigen in Selforganization of matter and the evolution of biological macromolecules. Naturwissenschaften 58(10):465, 1971), characterized by sequences that replicate with a specified fitness and mutate independently at single sites. The evolution of the population vector in time is then closely related to that of quantum spins in imaginary time. We employ multiple perspectives and tools from interacting quantum systems to examine growth and collapse of realistic viral populations, specifically considering excessive mutations in certain HIV proteins. All approaches used, including the simplest perturbation theory, give consistent results.

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Studying Viral Populations with Tools from Quantum Spin Chains

Abstract

All Science Journal Classification (ASJC) codes

Keywords

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