arXiv preprints from January 1, 2026 through September 5, 2026 — 04:19:02 EST
Characterising electrophysiological properties of cardiac tissue efficiently and accurately from spatially sparse intracardiac measurements is clinically important for localising ablation targets and improving arrhythmia treatment. We developed a graph neural network-based framework trained on synthetic electrogram signals on 2D flat...
Anticipated synchronization (AS), in which the receiver leads the sender and the phase lag is negative, can emerge in unidirectionally coupled dynamical systems when the receiver has faster internal dynamics than the sender. In cortical-like population models, AS and bistability between AS and delayed synchronization (DS) have been...
In this study, we develop a novel integrated framework that links the impact response with cellular dynamics using a live-neuron cell-integrated biomechanical full-body surrogate model. The impact event is simulated by allowing the surrogate model to fall from controlled seated release angles of 30-degree, 60-degree, and 90-degree....
Classical mathematical oncology employs deterministic mean-field models predicting that sufficiently high chemotherapy doses drive tumor density to zero. We show that this apparent cure is an artifact of neglecting demographic fluctuations. We construct a nonequilibrium stochastic PK-PD field theory combining a two-compartment...
The concept of valuing evolutionary history has a long tradition and was formalized by several research groups in the early 1990s, each aiming to capture the products of evolution more comprehensively than species richness alone. Preserving the "Tree of Life" has since become a central, if sometimes contested, goal in conservation...
As large language model (LLM) agents are increasingly adopted in scientific research, external knowledge bases, knowledge graphs, and long-term memory have improved information retrieval and task continuity. However, most structured knowledge systems remain node-centric, representing files, concepts, results, and judgments as nodes...
Oscillatory neuronal networks exhibit complex collective responses to external perturbations that depend on both the intrinsic network dynamics and the timing of stimulation. Although phase response curves (PRCs) have become a standard tool for characterizing these responses, phase resetting alone provides an incomplete description of...
Synaptic delays are fundamental determinants of neuronal communication and can profoundly influence the emergence and stability of cortical oscillations. Although their role in shaping network synchronization is well established, how synaptic delays regulate the collective response of neuronal populations to transient perturbations...
Solitary animals face a tradeoff when detecting threats: faster detection means accepting more false alarms. We show that groups can manage this tradeoff better by treating an undisturbed neighbor as evidence against a threat, becoming both faster and more accurate than lone individuals. Modeling each animal as a noisy...
We introduce MultiStructRNA, a unified Python toolkit for RNA secondary structure prediction, ensemble analysis, and visualization. Although RNA secondary structure is central to RNA biology and therapeutic design, practical adoption is often hindered by fragmented tooling, incompatible input and output formats, and limited...
Extinction is inevitable; every species eventually dies out, impacting the ecosystem it is part of. Over the past few decades, extensive research stemming from the stability-diversity debate has addressed how species diversity contributes to the stability of large ecosystems. However, conventional stability criteria often rely on...
Bioinformatics workflows rely heavily on visual representations. Quality-control plots, cell embeddings, heatmaps, genome-browser tracks, and interactive dashboards are not merely illustrations, but instruments for making analytical decisions. For blind and low-vision researchers who use screen readers, braille displays, or...
In social insects, mortality risk comprises distinct components that may not share the same predictors: lifespan duration, senescence trajectory, and thermal vulnerability. We tested these three axes in 18 Australian ant species using paired field-laboratory survival assays (2,363 cohort-day observations; 1,148 workers). Body size...
Multi-strain epidemiological systems frequently exhibit self-sustained oscillations, yet severe algebraic complexity has long obstructed a complete analytical characterization of these dynamics. Seeking to bypass these barriers, we have identified a broad, analytically tractable class of two-strain models featuring asymmetric...
Neurodegenexrative diseases such as Alzheimer's disease and Parkinson's disease are diagnosed most reliably only after substantial, often irreversible, neuronal loss has already occurred, creating an urgent need for quantitative tools that can detect subtle, early, and individual-specific brain changes from neuroimaging data. This...
The field of bioinformatics struggles with legacy code - old code that is commonly used but may no longer have a maintainer, or may be written in an now-unfamiliar language (e.g. Perl, Fortran). This incurs maintenance cost (technical debt), but dynamically typed languages also negatively impacts the environment and fail to make use...
Highly pathogenic avian influenza (HPAI) outbreaks require rapid control during active transmission and evidence-based decisions on the safe restocking of depopulated farms. We developed a stochastic spatial SEIR-based metapopulation model for a synthetic HPAI outbreak on the fictional Jolly Island. Farms were classified as...
Neurodegenerative diseases can be viewed as spreading processes on brain networks, in which pathological proteins propagate between anatomically connected brain regions. Mathematical models have been used to study this process, but they generally ignore the influence of neuronal activity, even though experimental studies show that...
Microbial populations generally evolve in fluctuating environments under time-varying conditions. These are often described by binary switching models, sometimes seen as coarse-grained feast-famine cycles, in which resource availability switches abruptly between abundant and scarce conditions. However, experimental studies suggest...
The classical problem of Other Minds has dogged philosophers for millennia; asking if we have any way to truly understand the experience of another mind. We know our own intrinsic experience by acquaintance, but can only ever hope to possess an extrinsic description of another's, with the two separated by an acquaintance gap....
Identifying individual learning styles optimizes pedagogical efficacy. While traditional questionnaires are structured, behavioral tracking methods require prolonged interaction log accumulation. To overcome these temporal constraints, this paper proposes an objective Electroencephalography (EEG) approach evaluating Phase Locking...
Scaling relations linking species size, abundance, and resource availability are among the most robust empirical regularities in ecology. However, a mechanistic explanation for how these community-level laws emerge from ecological processes remains elusive. Here, we address this gap by developing a minimal spatially explicit dynamical...
SVPLEX is a Nextflow pipeline for cohort-level structural variant detection from short-read whole-genome sequencing data. The pipeline implements six different structural variant callers with different strengths and weaknesses, integrating different levels of evidence for SVs, and generates a merged consensus callset across the...
Congruency effects, observed in conflict tasks such as Stroop and flanker tasks, have been investigated for nearly a century in psychology and neuroscience, but their mechanistic basis is not fully understood. We introduce a verbal-only LLM conflict task in which a prompt stem elicits a default same-color completion and an explicit...
AlphaFold3-class structure predictors pair a representational trunk, which processes sequence and context, with a diffusion module, which generates atomic coordinates. How biological information changes as it crosses this architectural boundary remains poorly understood. We analyze per-residue activations from the Pairformer trunk and...