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This paper introduces a new combinatorial framework for modeling the growth of binary trees through a discrete evolution process that incorporates a growing rule and an extinction rule. Building upon the theory of increasingly labeled…

Combinatorics · Mathematics 2026-03-30 Olivier Bodini , Antoine Genitrini , Khaydar Nurligareev

The yet virtually unexplored class of soft colloidal rods with small aspect ratio is investigated and shown to exhibit a very rich phase and dynamic behavior, spanning from liquid to nearly melt state. Instead of nematic order, these short…

We study a simple growth model for (d+1)-dimensional films of binary alloys in which atoms are allowed to interact and equilibrate at the surface, but are frozen in the bulk. The resulting crystal is highly anisotropic: Correlations…

Statistical Mechanics · Physics 2009-10-28 Barbara Drossel , Mehran Kardar

Predicting the binding structure of a small molecule ligand to a protein -- a task known as molecular docking -- is critical to drug design. Recent deep learning methods that treat docking as a regression problem have decreased runtime…

Biomolecules · Quantitative Biology 2023-02-14 Gabriele Corso , Hannes Stärk , Bowen Jing , Regina Barzilay , Tommi Jaakkola

We have studied shrinkage crack patterns which form when a thin layer of an alumina/water slurry dries. Both isotropic and directional drying were studied. The dynamics of the pattern formation process and the geometric properties of the…

patt-sol · Physics 2009-10-31 Kelly A. Shorlin , John R. de Bruyn , Malcolm Graham , Stephen W. Morris

We investigate the down-hill creep of a layer of granular material on a slope caused by an oscillatory variation of the size of the particles. The material is modeled as an athermal two dimensional polydisperse system of soft disks under…

Soft Condensed Matter · Physics 2022-08-31 E. A. Jagla

Amorphous materials of homogeneous structures usually suffer from nonuniform deformation under shear, which can develop into shear localization and eventually destructive shear band. One approach to tackle this issue is to introduce an…

Materials Science · Physics 2019-02-01 Guo-Jie J. Gao , Yun-Jiang Wang , Shigenobu Ogata

In this paper we present a generalization of a simple solid-on-solid epitaxial model of thin films growth, when surface morphology anisotropy is provoked by anisotropy in model control parameters: binding energy and/or diffusion barrier.…

Condensed Matter · Physics 2007-05-23 K. Malarz , A. Z. Maksymowicz

The developing structure in systems of compacting ductile grains were studied experimentally in two and three dimensions. In both dimensions, the peaks of the radial distribution function were reduced, broadened, and shifted compared with…

Soft Condensed Matter · Physics 2009-11-11 Lina Uri , Thomas Walmann , Luc Alberts , Dag Kristian Dysthe , Jens Feder

This paper investigates the statistical behavior of two-dimensional grain microstructures during grain growth under anisotropic grain boundary characters. We employ the threshold-dynamics method, which allows for unparalleled computational…

Materials Science · Physics 2023-09-19 Jaekwang Kim , Nikhil Chandra Admal

Monolayer molybdenum disulphide (MoS$_2$) is a promising two-dimensional (2D) material for nanoelectronic and optoelectronic applications. The large-area growth of MoS$_2$ has been demonstrated using chemical vapor deposition (CVD) in a…

We investigate uncertainty growth and chaotic dynamics in statistically steady, stably stratified three-dimensional turbulence. Using direct numerical simulations of the Boussinesq equations, we quantify the divergence of initially…

Fluid Dynamics · Physics 2025-12-08 Mrinal Jyoti Powdel , Samriddhi Sankar Ray

Full ranges of both hybrid plasmon-mode dispersions and their damping are studied systematically by our recently developed mean-field theory in open systems involving a conducting substrate and a two-dimensional (2D) material with a buckled…

Mesoscale and Nanoscale Physics · Physics 2017-04-05 Andrii Iurov , Godfrey Gumbs , Danhong Huang , Liubov Zhemchuzhna

The dynamics of holon-doublon pairs is studied in Hubbard two-leg ladders using the time-dependent Density Matrix Renormalization Group method. We find that the geometry of the two-leg ladder, that is qualitatively different from a…

Strongly Correlated Electrons · Physics 2012-11-26 Luis G. G. V. Dias da Silva , Gonzalo Alvarez , Elbio Dagotto

Deposits of dipolar particles are investigated by means of extensive Monte Carlo simulations. We found that the effect of the interactions is described by an initial, non-universal, scaling regime characterized by orientationally ordered…

Statistical Mechanics · Physics 2009-11-10 F. de los Santos , J. M. Tavares , M. Tasinkevych , M. M. Telo da Gama

Crack growth behaviour along the coherent twin boundary (CTB), i.e., $\Sigma$3{112} of BCC Fe is investigated using molecular dynamics (MD) simulations. The growth of an atomistically sharp crack with {112}$<$110$>$ orientation has been…

Materials Science · Physics 2016-11-09 G. Sainath , B. K. Choudhary

We consider the growth of a polymer layer on a flat surface in a good solvent by in-situ polymerization. This is viewed as a modified form of diffusion-limited aggregation without branching. We predict theoretically the formation of a…

Statistical Mechanics · Physics 2009-10-31 J. P. Wittmer , M. E. Cates , A. Johner , M. S. Turner

Motivated by recent experiments on growing fibroblasts, we examine the development of nematic order in a colony of elongated cells proliferating on a nematic elastomer substrate. After sparse seeding, the cells divide and grow into locally…

Soft Condensed Matter · Physics 2026-01-06 Toshi Parmar , Fridtjof Brauns , Yimin Luo , M. Cristina Marchetti

Spontaneous stratification of granular mixtures has been reported by Makse et al. [Nature 386, 379 (1997)] when a mixture of grains differing in size and shape is poured in a quasi-two-dimensional heap. We study this phenomenon using two…

Statistical Mechanics · Physics 2009-10-31 Pierre Cizeau , Hernan A. Makse , H. Eugene Stanley

An intriguing phenomenon displayed by granular flows and predicted by kinetic-theory-based models is the instability known as particle "clustering," which refers to the tendency of dissipative grains to form transient, loose regions of…

Statistical Mechanics · Physics 2012-04-17 Peter P. Mitrano , Vicente Garzó , Andrew M. Hilger , Christopher J. Ewasko , Christine M. Hrenya