Machine-learning a virus assembly fitness landscape

نویسندگان

چکیده

Realistic evolutionary fitness landscapes are notoriously difficult to construct. A recent cutting-edge model of virus assembly consists a dodecahedral capsid with $12$ corresponding packaging signals in three affinity bands. This whole genome/phenotype space consisting $3^{12}$ genomes has been explored via computationally expensive stochastic models, giving landscape terms the efficiency. Using latest machine-learning techniques by establishing neural network, we show that intensive computation can be short-circuited matter minutes astounding accuracy.

برای دانلود رایگان متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Structural considerations in the fitness landscape of a virus.

Viral fitness is determined by replication within hosts and transmission between them. We examine how pleiotropic mutations that have antagonistic effects (i.e., antibody evasion vs. receptor binding) on viral replication within hosts can impact viral immune escape in the host population. When the host population is vaccinated, the virus escapes from passive immunity by mutations in the antibod...

متن کامل

Virus assembly: Imaging a molecular machine

A recent structural study of a double-stranded DNA bacteriophage has provided remarkable new insights into the assembly of a complex virus particle and ushers in a new era in the imaging of non-icosahedral viruses.

متن کامل

BRAIN - Machine Learning to Measure Banknote Fitness

A challenge for central banks is to decide whether used banknotes are still suitable for recirculation, or rather should be shredded and replaced by new ones. Obviously longer use of banknotes reduces the printing costs and environmental burden. Given the huge amounts of banknotes in circulation, determining the fitness of banknotes is not only of importance in cost control, but also poses a se...

متن کامل

Competition in a Fitness Landscape

We present an extension of Eigen’s model for quasi-species including the competition among individuals, proposed as the simplest mechanism for the formation of new species in a smooth fitness landscape. We are able to obtain analytically the critical threshold for species formation. The comparison with numerical simulations is very good.

متن کامل

Fitness landscape of human immunodeficiency virus type 1 protease quasispecies.

Here we show, at a high resolution (1%), the human immunodeficiency virus type 1 (HIV-1) protease gene quasispecies landscape from three infected naïve individuals. A huge range of genetic configurations was found (67%, 71%, and 80% of the nucleotide clones from the three individuals, respectively, were different), and these configurations created a dense net that linked different parts of the ...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

ژورنال

عنوان ژورنال: PLOS ONE

سال: 2021

ISSN: ['1932-6203']

DOI: https://doi.org/10.1371/journal.pone.0250227