Quantitative Biology
Cells represent one of the most fundamental units of life. Underlying their robust performance against environmental variability, such as temporal fluctuations of chemical signals, between different cell types, is a dynamical interrelation…
Visual brand language is the set of visual properties that convey brand identity for a product. What is the impact of visual brand language on a person's ability to recognize and understand the functional identity of an object? Using an…
Physiological tremor of the upper limb is a sensitive neuromuscular indicator that may be modulated by cognitive load and competitive stress, yet its behaviour in real esports conditions remains uncharacterised. We measured wrist…
Seeds are fundamental to agricultural productivity but also act as potential vectors for pathogens, leading to substantial losses at seedling emergence. This study focuses on one major arable crop (i.e., Wheat) which is subject to…
Understanding the mechanistic function of a gene is a critical starting point for biology. However, for much of the human proteome that knowledge is scattered across thousands of primary papers or remains poorly established, while the…
Classifying heterogeneous omics data remains a fundamental challenge in computational biology, particularly in high-dimensional, small-sample settings where nonlinear interactions dominate and class imbalance further complicates reliable…
Sociability toward humans is a key adaptive trait in free-ranging dogs, enabling them to access resources while navigating risks associated with human interactions. In this study, we investigated whether operant conditioning shapes…
Accurately reconstructing gene regulatory networks (GRNs) is essential for understanding transcriptional processes in development and disease. MERLIN-SUITE (https://github.com/Roy-lab/MERLIN-SUITE) represents a collection of algorithmic…
Despite increasing scale and resolution, many biological measurements remain destructive, revealing only spatial information rather than the dynamics it encodes. By combining flexible representations with mechanistic constraints,…
Antibody productivity and glycosylation quality in CHO cultures arise from a dynamically evolving metabolic environment, yet models often work in isolation or at a single scale. Here, we present a multiscale mechanistic framework linking…
Transcriptional gene regulatory networks (GRNs) depict the directed relationships between regulators and target genes, determining gene expression patterns in a cell-type-specific manner. Single-cell multi-omics technologies, such as…
Histone H3K27M mutation status defines a clinically aggressive subgroup of pediatric diffuse midline glioma and informs prognosis and trial eligibility, but confirmation usually requires tissue sampling from eloquent midline structures. We…
Estimating peak prevalence is a central problem in epidemic modeling because it determines the period of greatest infectious burden and is closely linked to health-care demand. In multistage SIR models, however, peak prevalence is generally…
Population immunity carried over from past epidemics of an antigenically variable pathogen influences the epidemic of new variants based on their antigenic similarity to the previous ones. We develop a recurrent SIR model where a population…
Protein flexibility, commonly quantified by B-factors, is closely related to protein structure and function. However, accurate B-factor prediction remains challenging due to the multiscale nature of protein structures and the complexity of…
Brain activity spans single-neuron, population, and network levels, and core questions in neural coding require moving between them. Yet current tools target a single paradigm and incompatible data formats, leaving cross-level questions…
In multispecies birth-death processes, how population regulation -- through suppressed replication, elevated mortality, or both -- affects macroscopic stochastic dynamics has escaped detailed analysis. Here, we show that the distribution of…
This work addresses an optimal control problem for a SI epidemic model incorporating heterogeneities in resistance and viral load at the population level. Building upon the heterogeneous SI framework developed in [1], a minimization problem…
This study presents a comprehensive analysis of bird diversity across Sri Lanka by integrating spatial, temporal, and environmental data. Bird observation records were combined with environmental variables, including weather conditions, air…
Understanding how complex cognitive functions are organized within artificial systems is central to interpreting large language models (LLMs) and relating them to biological cognition. Yet although LLMs exhibit broad cognitive-like…