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Program synthesis with Genetic Programming searches for a correct program that satisfies the input specification, which is usually provided as input-output examples. One particular challenge is how to effectively handle loops and recursion…
In this paper, we develop new algorithms for the basic RNA folding problem. Given an RNA sequence that contains $n$ nucleotides, the goal of the problem is to compute a pseudoknot-free secondary structure that maximizes the number of base…
We introduce a novel unsteady shear protocol, which we name Rotary Shear (RS), where the flow and vorticity directions are continuously rotated around the velocity gradient direction by imposing two out-of-phase oscillatory shear (OS) in…
Electrochemical etching of semiconductors, beside technical applications, provides an interesting experimental setup for self-organized structure formation capable of regular, diameter-modulated, and branching pores. The underlying…
The characterization of the long-range order and fractal properties of DNA sequences has proved a difficult though highly rewarding task due mainly to the mosaic character of DNA consisting of many interwoven patches of various lengths with…
We discuss a polymer model for the 3D organization of human chromosomes. A chromosome is represented by a string of beads, with each bead being "colored" according to 1D bioinformatic data (e.g., chromatin state, histone modification, GC…
We use a spatially resolved cavity ring-down technique to show that the 2D eigenmode of an unstable optical cavity has a fractal pattern, i.e. it looks the same at different length scales. In agreement with theory, we find that this pattern…
Exponential growth describes an extremely rapid process ubiquitous across mathematics and diverse physical, biological, and technological systems. Here, we introduce a class of fractal-inspired lattices that combine long-range periodic…
Optical Coherence Tomography(OCT) is a non-invasive technique capturing cross-sectional area of the retina in micro-meter resolutions. It has been widely used as a auxiliary imaging reference to detect eye-related pathology and predict…
Origami morphing, obtained with patches of piecewise smooth isometries separated by straight fold lines, is an exquisite art that has already received considerable attention in the mathematics and mechanics literature. Curved fold lines,…
This study proposes a method for producing an infinite number of fractals using aperiodic substitution tilings, exemplified by the Ammann Chair tiling. Higher-order substitutions of aperiodic tilings are utilized in relation to the…
Optical coherence tomography (OCT) has seen widespread success as an in vivo clinical diagnostic 3D imaging modality, impacting areas including ophthalmology, cardiology, and gastroenterology. Despite its many advantages, such as high…
Within a mathematical model, the metabolic process of glycolysis is studied. The general scheme of glycolysis is considered as a natural result of the biochemical evolution. By using the theory of dissipative structures, the conditions of…
Recent interpretability work often treats a feature as a single global direction, dictionary atom, or latent coordinate shared across contexts. We argue that this ontology can fail in obstructed representation spaces, where locally coherent…
We investigate the onset of irreversibility in a dense granular medium subjected to cyclic shear in a split-bottom geometry. To probe the micro and mesoscale we image bead trajectories in 3D throughout a series of shear strain oscillations.…
The phenomenon of self-organization has been of special interest to the neural network community for decades. In this paper, we study a variant of the Self-Organizing Map (SOM) that models the phenomenon of self-organization of the…
Inertia orbifolds homotopy-quotiented by rotation of geometric loops play a fundamental role not only in ordinary cyclic cohomology, but more recently in constructions of equivariant Tate-elliptic cohomology and generally of transchromatic…
As the parameters of a piecewise-smooth system of ODEs are varied, a periodic orbit undergoes a bifurcation when it collides with a surface where the system is discontinuous. Under certain conditions this is a grazing-sliding bifurcation.…
Optomechanical crystals (OMCs) are a promising and versatile platform for transduction between mechanical and optical fields. However, the release from the substrate used in conventional suspended OMCs also prevents heat-carrying noise…
The strongly correlated systems we use to realise quantum error-correcting codes may give rise to high-weight, problematic errors. Encouragingly, we can expect local quantum error-correcting codes with no string-like logical operators $-$…