Experimenting with knots

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Numerous tasks in robotics and character animation involve solving combinations of inverse kinematics and motion planning problems that require the precise design of pose sequences to achieve desired motion objectives. Accounting for the complex interplay ...

The Birman-Williams theorem gives a connection between the collection of unstable periodic orbits (UPOs) contained within a chaotic attractor and the topology of that attractor, for three-dimensional systems. In certain cases, the fractal dimension of a ch ...

The International Tokamak Physics Activity (ITPA) has developed a comprehensive overview of the results of its coordinated R&D activities in fusion physics and diagnostics implemented during the past two decades with the aim of developing an improved physi ...

Cells are the smallest operational units of living systems. Through synthesis of various biomolecules and exchange of signals with the environment, cells tightly regulate their composition to realize a specific functional state. The transformation of a cel ...

Bacteria are ubiquitous single cellular organisms. Compared to eukaryotic cells, bacteria have two unique characteristics: the membrane-less nucleoid and the cell wall built of peptidoglycan (PG). In most bacteria, a single circular chromosome is compacted ...

In this thesis we study stability from several viewpoints. After covering the practical importance, the rich history and the ever-growing list of manifestations of stability, we study the following. (i) (Statistical identification of stable dynamical syste ...

The Industrial Internet of Things (IIoT) is reshaping manufacturing, industrial processes, and infrastructure management. By fostering new levels of automation, efficiency, and predictive maintenance, IIoT is transforming traditional industries into intell ...

Cis-genetic effects are key determinants of transcriptional divergence in discrete tissues and cell types. However, how cis- and trans-effects act across continuous trajectories of cellular differentiation in vivo is poorly understood. Here, we quantify al ...

How chronic mutational processes and punctuated bursts of DNA damage drive evolution of the cancer genome is poorly understood. Here, we demonstrate a strategy to disentangle and quantify distinct mechanisms underlying genome evolution in single cells, dur ...

Seventh pandemic Vibrio cholerae strains contain two pathogenicity islands that encode the DNA defense modules DdmABC and DdmDE. Here we use cryogenic electron microscopy to reveal the mechanistic basis for plasmid defense by DdmDE. A structure of the DdmD ...

Topological Weyl semimetals represent a novel class of nontrivial materials, where band crossings with linear dispersions take place at generic momenta across reciprocal space. These crossings give rise to low -energy properties akin to those of Weyl fermi ...

Since Strahl and Allis proposed the "language of covalent histone modifications", a host of experimental studies have shed light on the different facets of chromatin regulation by epigenetic mechanisms. Initially proposed as a concept for controlling gene ...

Hyperbolic lattices are a new type of synthetic materials based on regular tessellations in non-Euclidean spaces with constant negative curvature. While so far, there has been several theoretical investigations of hyperbolic topological media, experimental ...

High-throughput transcriptomics is of increasing fundamental biological and clinical interest. The generation of molecular data from large collections of samples, such as biobanks and drug libraries, is boosting the development of new biomarkers and treatm ...

This Ph.D. thesis unveils the unique topological phenomena occurring in such networks, focusing on the intricate interplay between their Floquet topology, the presence of disorder, and their unitary scattering at microscopic and macroscopic scales. Using t ...

Base excision repair enzymes (BERs) detect and repair oxidative DNA damage with efficacy despite the small size of the defects and their often only minor structural impact. A charge transfer (CT) model for rapid scanning of DNA stretches has been evoked to ...

Cartilage homeostasis, crucial for musculoskeletal function, is orchestrated by interconnected biophysical cues. In healthy cartilage, repetitive compressive loading not only elicits a range of mechanical stimuli but also induces a gradual transient temper ...

Traditional cell cultures have long been fundamental to biological research, offering an alternative to animal models burdened by ethical constraints and procedural intricacies, often lacking relevance to human physiology and disease. Moreover, their inabi ...

Analysis of single-cell datasets generated from diverse organisms offers unprecedented opportunities to unravel fundamental evolutionary processes of conservation and diversification of cell types. However, interspecies genomic differences limit the joint ...

Living photovoltaics are microbial electrochemical devices that use whole cell–electrode interactions to convert solar energy to electricity. The bottleneck in these technologies is the limited electron transfer between the microbe and the electrode surfac ...

Experimenting with knots

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Inverse Geometric Locomotion

The topology of a chaotic attractor in the Kuramoto-Sivashinsky equation

Introduction and Overview: Chapter 1 of the Special Issue: on the Path to Tokamak Burning Plasma Operation

Deciphering the nature of cell state transitions in single cells using quantitative modeling of temporal dynamics

Resolving bacterial cell biology: from replisome dynamics to cell wall synthesis

Stability: a search for structure

Physics-Enhanced Graph Neural Networks for Soft Sensing in Industrial Internet of Things

The dynamic genetic determinants of increased transcriptional divergence in spermatids

Single-mitosis dissection of acute and chronic DNA mutagenesis and repair

Molecular mechanism of plasmid elimination by the DdmDE defense system

High-throughput screening of Weyl semimetals

Decoding Chromatin Ubiquitylation: A Chemical Biology Perspective

Anomalous and Chern topological waves in hyperbolic networks

Multi-well plate lid for single-step pooling of 96 samples for high-throughput barcode-based sequencing

Topological photonic transport in disordered scattering networks

Oxidative Defect Detection Within Free and Packed DNA Systems: A Quantum Mechanical/Molecular Mechanics (QM/ MM) Approach

Synergetic Support of Cartilage Homeostasis via Coupled Thermal-Hydrostatic Pressure Stimuli

Accessible and highly observable gastrointestinal organoid model systems for studying host-pathogen interactions

Toward universal cell embeddings: integrating single-cell RNA-seq datasets across species with SATURN

Polydopamine-coated photoautotrophic bacteria for improving extracellular electron transfer in living photovoltaics