定量生物学
Neural electrical activity is fundamental to brain function, underlying a range of cognitive and behavioral processes, including movement, perception, decision-making, and consciousness. Abnormal patterns of neural signaling often indicate…
Small and large scale pandemics are a natural phenomenon repeatably appearing throughout history, causing ecological and biological shifts in ecosystems and a wide range of their habitats. These pandemics usually start with a single strain…
To better predict the dynamics of epidemics such as COVID-19, it is important not only to investigate the network of local and long-range contagious contacts but also to understand the temporal dynamics of infectiousness and detectable…
Since the earliest electroencephalography experiments, large scale oscillations have been observed in the mammalian brain. More recently, episodes of oscillation and bursting have been identified not only in the cerebral cortex and…
Biomedical knowledge graphs (KGs) are widely used across research and translational settings, yet their design decisions and implementation are often opaque. Unlike ontologies that more frequently adhere to established creation principles,…
Over the past decade, techniques enabling bidirectional modulation of neuronal activity with single cell precision have rapidly advanced in the form of two-photon optogenetic stimulation. Unlike conventional electrophysiological approaches…
During fieldwork in Thailand we observed nearly identical frequencies of co-located flashing fireflies and chirping crickets. Motivated by this, we perform a meta-analysis and show an abundance of evolutionarily distinct species that…
Cryptochrome flavoproteins are prime candidates for mediating magnetic sensing in migratory animals via the radical pair mechanism (RPM), a spin-dependent process initiated by photoinduced electron transfer. The canonical FAD-tryptophan…
Efficient information processing is crucial for both living organisms and engineered systems. The mutual information rate, a core concept of information theory, quantifies the amount of information shared between the trajectories of input…
Human metapneumovirus (hMPV) poses serious risks to pediatric, elderly, and immunocompromised populations. Traditional antibody discovery pipelines require 10-12 months, limiting their applicability for rapid outbreak response. This project…
Collective cell migration is a fundamental biological process that drives events such as embryonic development, wound healing, and cancer metastasis. In this study, we develop a biophysically informed phase-field model to investigate the…
Proteins perform nearly all cellular functions and constitute most drug targets, making their analysis fundamental to understanding human biology in health and disease. Tandem mass spectrometry (MS$^2$) is the major analytical technique in…
While linear registration is a critical step in MRI preprocessing pipelines, its numerical uncertainty is understudied. Using Monte-Carlo Arithmetic (MCA) simulations, we assessed the most commonly used linear registration tools within…
The microtubule cytoskeleton is comprised of dynamic, polarized filaments that facilitate transport within the cell. Polarized microtubule arrays are key to facilitating cargo transport in long cells such as neurons. Microtubules also…
Anyone who has tried to memorize a one-hundred-digit number can attest that the human brain acquires abstract information slowly. However, following a three-decade increase of results at memory competitions, the best competitors manage to…
In many species of songbirds, juvenile males learn their songs from adult male tutors. In this paper we formulate a novel Markov model for birdsong transmission developed by analogy with models used in biological sequence analysis. We fit…
I consider motivation and value-alignment in AI systems from the perspective of (constrained) entropy maximization. Though the structures encoding knowledge in any physical system can be understood as energetic constraints, only living…
The mitigation of stress is a key challenge for all biological systems. Conditions of unresolvable stress have been associated with a diverse array of pathologies, from cancer to post-traumatic stress disorder (PTSD). Here, I unify insights…
Vector-borne diseases arise from the coupled dynamics of human mobility and mosquito ecology, producing outbreaks shaped by both spatial distributions and temporal patterns of movement. Here we develop a coarse-grained hub--leaf reduction…
Bacteria often develop distinct phenotypes to adapt to environmental stress. In particular, they can produce biofilms, dense communities of bacteria that live in a complex extracellular matrix. Bacterial biofilms provide a safe haven from…