Quantitative Biology
Bacteria evolve in volatile environments and complex spatial structures. Migration, fluctuations and environmental variability therefore have a significant impact on the evolution of microbial populations. Here, we consider a class of…
Can large language models (LLMs) instantiate computations of psychopathology? An effective approach to the question hinges on addressing two factors. First, for conceptual validity, we require a general and computational account of…
There is mounting evidence that species interactions often involve long-term memory, with highly-varying waiting times between successive events and long-range temporal correlations. Accounting for memory undermines the common Markovian…
Given non-sequential snapshots from instances of a dynamical system, we design a compressed sensing based algorithm that reconstructs the dynamical system. On the theoretical side, we show that: (1) successful reconstruction is possible…
This research reports the entropy transfer throughout the tridimensional structure of PDZ-2 and TIM barrel structures using the dynamic Gaussian Network Model. The model predicts the allocation of the allosteric pathways of the PDZ-2.…
An age structured mathematical model with time dependent parameters is developed to investigate the dynamics of dengue transmission. Its properties are thoroughly analyzed in the first part of this work, as for example its disease free…
Predicting the binding affinity of protein protein complexes directly from sequence remains a challenging problem, particularly in the absence of reliable structural information. Here I present ProtT Affinity, a sequence only model that…
Introduction: In Thailand, Hepatitis B is still endemic despite a strong program to eliminate the disease. A higher prevalence is reported in the border region and among migrants due to physical, financial and cultural barriers. Policies…
In neurosciences, the brain processes information via the firing patterns of connected neurons operating across a spectrum of frequencies. To better understand the effects of these frequencies in the neuron dynamics, we have simulated a…
The move towards personalized treatment and digital twins for cancer therapy requires a complete understanding of the mathematical models upon which these optimized simulation-based strategies are formulated. This study investigates the…
Antisense oligonucleotides (ASOs) are nucleic acid molecules with transformative therapeutic potential, especially for diseases that are untreatable by traditional drugs. However, the production and purification of ASOs remain challenging…
In this work, we study the finite-population behaviour of the Reed-Frost epidemic model. Our analysis relies on the exact expression for the final epidemic size, replaced by Monte Carlo simulations in cases where the exact formula becomes…
Empirical evidence of scaling behaviors in neuronal avalanches suggests that neuronal populations in the brain operate near criticality. Departure from scaling in neuronal avalanches has been used as a measure of distance to criticality and…
Brain-computer interface (BCI) technology enables direct communication between the brain and external devices through electroencephalography (EEG) signals. However, existing decoding models often mix common and personalized components,…
People often speak of being "moved beyond words" when witnessing awe-inspiring natural beauty, experiencing profound moral elevation, or encountering powerful works of art and music. Such moments evoke intensely embodied sensations - a…
Music is a universal feature of human culture, linked to embodied cognitive functions that drive learning, action, and the emergence of creativity and individuality. Evidence highlights the critical role of statistical learning an implicit…
Understanding how age-specific social contact patterns and susceptibility influence infectious disease transmission is crucial for accurate epidemic modeling. This study presents an eigenvector-based sensitivity analysis framework to…
Drug-releasing implants are gaining momentum in the treatment of glaucoma. However, they present several limitations, such as the inability to provide an even distribution of the drug in the trabecular meshwork. CFD simulations were used in…
Extracellular vesicles (EVs) are cell-derived secretions that mediate tissue homeostasis and intercellular communication through their diverse cargos, such as proteins. Distinct EV biogenesis pathways suggest specific association and…
Microproteins are a newly recognized and rapidly growing class of small proteins, typically encoded by fewer than 100 to 150 codons and translated from small open reading frames (smORFs). Although research has shown that smORFs and their…