Center for Theoretical Biological Physics

Truncation uncertainties for accurate quantum simulations of lattice gauge theories

The encoding of lattice gauge theories onto quantum computers requires a discretization of the gauge field's Hilbert space on each link, which presents errors with respect to the Kogut–Susskind limit. In the electric basis, Hilbert space fragmentation has recently been shown to l...

Purkinje cells in Crus I and II encode the visual stimulus and the impending choice as monkeys learn a reinforcement based visuomotor association task

Abstract Visuomotor association involves linking an arbitrary visual cue to a well-learned movement. Transient inactivation of Crus I/II impairs primates’ ability to learn new associations and delays motor responses without affecting the kinematics of the movement. The simple spi...

Genomic predisposition is associated with the direction of sex chromosome evolution

Sex chromosome evolution is among the most dynamic genomic innovations in vertebrates, yet why some lineages evolve XY while others evolve ZW remains unclear. Using chromosome-level genomes from 19 geckos, we found that gecko sex chromosomes originated independently from 16 ances...

PARSEC.py: A Python‐Based Real‐Space Kohn–Sham Density Functional Theory Code Accelerated by Machine Learned Charge Density

ABSTRACT PARSEC.py is a Python‐based real‐space Kohn–Sham density functional theory (real‐space KS‐DFT) framework designed to provide a user‐ and developer‐friendly platform for first‐principles electronic‐structure simulations. Discretization on real‐space grids eliminates basis...

Polyamorphism in glassy network materials

One dramatic feature of network liquids is the emergence at low temperatures and high pressures of polyamorphism, where multiple distinct liquid phases are accessed in a single material. Polyamorphism can arise from the competition between distinct local structures corresponding...

Ribosomal protein bL27 protects translating ribosomes from tmRNA-SmpB

Bacterial ribosomal protein bL27 is universally conserved, and its amino terminus is adjacent to the peptidyl transfer center, yet its roles in translation remain unclear. Combining genetics, biochemistry, and molecular dynamics, we show that bL27 has an unexpected role in preven...