Quantitative Biology
Bacterial phase variation enables reversible, locus-specific phenotypic switching, often driven by DNA inversion (invertons). To identify these events, researchers commonly rely on sequencing reads that provide orientation-specific support.…
Early identification of individuals at risk of stroke remains a major clinical challenge, as prodromal motor im- pairments are often subtle and transient. In this pilot study, a wearable sensor-based framework is proposed for early pre-…
Broad mobility restrictions can help control infectious disease spread, but their socioeconomic costs and the variation in transmission risks by mobility purpose, age group, and spatial connectivity highlight the need for targeted…
QuPath is open-source software for bioimage analysis. As a desktop application that is flexible and easy to install, QuPath is used by labs worldwide to visualise and analyse large and complex images. However, relying only on images stored…
Mathematical models of biological populations commonly use discrete structure classes to capture trait variation among individuals (e.g. age, size, phenotype, intracellular state). Upscaling these discrete models into continuum descriptions…
Objectively verifying the generative mechanism of consciousness is extremely difficult because of its subjective nature. As long as theories of consciousness focus solely on its generative mechanism, developing a theory remains challenging.…
Absolute Binding Free Energy (ABFE) methods are among the most accurate computational techniques for predicting protein-ligand binding affinities, but their utility is limited by the need for many simulations of alchemically modified…
Translating single-cell RNA sequencing (scRNA-seq) data into mechanistic biological hypotheses remains a critical bottleneck, as agentic AI systems lack direct access to transcriptomic representations while expression foundation models…
Background: Pleuroparenchymal fibroelastosis (PPFE) is an upper lobe predominant fibrotic lung abnormality associated with increased mortality in established interstitial lung disease. However, the clinical significance of radiologic PPFE…
Obesity does not emerge abruptly; rather, it develops gradually over extended periods. The gradual progression often prevents early recognition of physiological changes until excess adiposity is established. A common belief is that weight…
West Nile virus (WNV) is a mosquito-borne virus in the genus Flavivirus that circulates between mosquitoes and birds, whereas humans, equids, and other mammals are dead-end hosts. Since its emergence in Germany in 2018, the virus has spread…
West Nile virus (WNV) is a climate-sensitive mosquito-borne arbovirus circulating between mosquitoes of the genus Culex and birds, with a potential spillover to humans and other mammals. Recent trends in climatic change, characterized by…
The topological and geometrical features at the boundary zone of planar polygonal networks remain poorly understood. Based on observations and mathematical proofs, we propose that marginal cells in the thalli of Pyropia haitanensis, a…
Heterogeneous molecular entities and their interactions, commonly depicted as a network, are crucial for advancing our systems-level understanding of biology. With recent advancements in high-throughput data generation and a significant…
Complex systems, such as life and languages, are governed by principles of evolution. The analogy and comparison between biology and linguistics\cite{alphafold2, RoseTTAFold, lang_virus, cell language, faculty1, language of gene, Protein…
Neuroscience has long informed the development of artificial neural networks, but the success of modern architectures invites, in turn, the converse: can modern networks teach us lessons about brain function? Here, we examine the structure…
This study investigates the cognitive motor control detection and the underlying neuroregulatory mechanisms during music-assisted simulated driving. Using a dynamic higher-order network model constructed with EEG-based cross-information…
We develop a generally covariant description of evolutionary dynamics that operates consistently in both genotype and phenotype spaces. We show that the maximum entropy principle yields a fundamental identification between the inverse…
Microbial communities harbor extensive fine-scale diversity: closely-related strains of the same species coexist alongside many distantly-related taxa. Yet strain coexistence remains poorly understood, largely because most studies neglect…
Motivation: The scalable identification of bioactive compounds is essential for contemporary drug discovery. This process faces a key trade-off: structural screening offers scalability but lacks biological context, whereas high-content…