Quantitative Biology
Predicting how molecular changes affect large-scale brain activity is a difficult task because of the lack of appropriate methods to link scales. In this perspective, we review a class of mean-field models that can integrate biophysical…
Reproductive hormones regulate a wide range of physiological processes throughout the human lifespan. Estrogen, in particular, varies substantially across the menstrual cycle and is widely used in contraceptives and hormone replacement…
Neural tracking - the time-locking of neural responses to continuous stimuli such as speech, music, and video - is widely used to study how the brain processes natural input. Tracking strength is typically quantified as the correlation…
A key issue in using AI for pathology diagnosis is what image information should be given to the AI and how limited analysis resources should be used. This study compares two ways of processing different types of images under limited…
Protein backbone generation models are often credited with exploring novel fold space based solely on low full-chain similarity to known proteins, yet this cannot distinguish a genuinely new fold from a novel assembly of known structural…
Proteolysis-targeting chimeras (PROTACs) induce protein degradation by recruiting a target protein to an E3 ubiquitin ligase, making degradation a joint outcome of the degrader molecule and its biological context. Although public databases…
How many distinguishable labels can a biological oscillator carry? Proposals invoking collective vibrational modes, endogenous electromagnetic fields, microtubule excitations and oscillatory phase codes are each debated on grounds…
Aquaporins (AQPs) are an ancient group of channels that arose early in phylogeny and radiated throughout the kingdoms of life. Classified as members of the broad Membrane Intrinsic Protein family, AQPs originally were envisioned as strictly…
Characterizing the dissimilarity of neural representations between experimental conditions, and tracking it across time, is a central goal of multivariate pattern analysis. Guggenmos et al. (2018) assessed the reliability of many of the…
Computational head models are typically applied to isolated impacts, leaving repeated head loading largely unexplored. An Ogden-Roxburgh Mullins damage formulation was implemented in a high-fidelity finite element head model to represent…
Background: Brain information processing deteriorates as cortical neurons gradually transition from a rested state into fatigue. Subjectively, fatigue is experienced as a state of weariness, tiredness, or lack of energy that reduces the…
Graph-theoretical analysis offers a principled framework for quantifying emergent dynamics in neuronal cultures. Here, we present an analytical pipeline for inferring network-level properties of in vitro cortical cultures from multichannel…
Here, we present an overview of how archaeogenomic data can be used to investigate past mobilities and how it can be integrated with archaeological research to reconstruct models of human mobility at different scales. We first seek to…
Biological systems not only infer states of the external world from sensory input but also vary the expression of their responses according to the information they have acquired. Here, without altering the standard inferential and…
Many computational problems possess the following three features: (1) the problem could be solved efficiently if a linear operator could be diagonalized, (2) direct diagonalization is infeasible due to scale, but, (3) the operator is known…
Gene expression is an intrinsically stochastic process that generates phenotypic heterogeneity within genetically identical cell populations. While the exact statistical moments of the protein count can be obtained for a broad range of…
Tumor progression is an inherently multiphysical phenomenon in which interstitial fluid dynamics, biochemical transport, and cellular mechanics interact across multiple spatiotemporal scales. Classical mesh-based solvers, although accurate,…
Continuous hemodynamic monitoring guides treatment decisions in surgery and intensive care. However, gold-standard signals are only measured in severe cases due to risks associated with invasive measurement. In this work, we introduce HIPNO…
In computational psychiatry, task-irrelevant factors such as a task's perceptual and motor features are typically assumed not to bias decision behavior, but at most to add noise. Yet growing evidence links sensorimotor processing to…
5-aminolevulinic acid (5-ALA) promotes fluorescence-based resection of glioblastoma via protoporphyrin IX (PpIX); however, there is considerable heterogeneity in fluorescence intensity, limiting margin distinction. Cell-line studies show…