定量生物学
Gene expression data is essential for understanding how genes are regulated and interact within biological systems, providing insights into disease pathways and potential therapeutic targets. Gene knockout has proven to be a fundamental…
The biofilms response on active attachment surfaces (submerged plant leaves) and inert attachment surfaces (biomimetic plant glass attachment surfaces) and their effects on PAHs and nitrogen transformation under the application conditions…
Peptide drugs incorporating non-standard amino acids (NSAAs) offer improved binding affinity and improved pharmacological properties. However, existing peptide design methods are limited to standard amino acids, leaving NSAA-aware design…
We offer a comment on the Centaur (Binz et al., 2025) transformer-based model of human behavior. In particular, Centaur was cast as a path towards unified theories of cognition. We offer a counter claim with supporting argument: Centaur is…
Memristors have emerged as ideal components for modeling synaptic connections in neural networks due to their ability to emulate synaptic plasticity and memory effects. Discrete models of memristor-coupled neurons are crucial for…
Cognitive maps provide a powerful framework for understanding spatial and abstract reasoning in biological and artificial agents. While recent computational models link cognitive maps to hippocampal-entorhinal mechanisms, they often rely on…
Ecological models traditionally explain stability and coexistence through pairwise interactions among species. These interactions can also involve groups of three or more species, higher-order interactions, which recent theory suggests can…
Nowadays there is a big spotlight cast on the development of techniques of explainable machine learning. Here we introduce a new computational paradigm based on Group Equivariant Non-Expansive Operators, that can be regarded as the product…
We consider the relationship between thermodynamics, fitness, and Darwinian selection in autocatalytic molecular replicators. We uncover a thermodynamic bound that relates fitness, replication rate, and thermodynamic affinity of…
Everyone can see that over the last 150 years, theoretical ecology has become considerably more mathematical. But what is the nature of this phenomenon? Are mathematics applied, as in the use of statistical tests, for example, or are they…
Accurate modeling of neuronal action potential (AP) onset timing is crucial for understanding neural coding of danger signals. Traditional leaky integrate-and-fire (LIF) models, while widely used, exhibit high relative error in predicting…
Background: Coordinated control of eye and hand movements is critical for nearly all goal-directed actions, underpinning tasks ranging from simple object manipulation to complex tool use. This coordination relies on temporal coupling…
To promote climate adaptation and mitigation, it is crucial to understand stakeholder perspectives and knowledge gaps on land use and climate changes. Stakeholders across 21 European islands were consulted on climate and land use change…
This paper studies linear mathematical modeling of brain's cortical dynamics using electroencephalography (EEG) data in an experiment with continuous exogenous input. The EEG data were recorded while participants were seated with their…
Low vision involves a range of visual impairments that significantly impact daily activities, particularly navigation in urban environments. Individuals with low vision often develop adaptive strategies to compensate for visual deficits,…
Medulloblastoma is a malignant pediatric brain cancer, and the discovery of molecular subgroups is enabling personalized treatment strategies. In 2019, a consensus identified eight novel subtypes within Groups 3 and 4, each displaying…
Objective: To develop an explainable multimodal large language model (MM-LLM) that (1) screens optic nerve head (ONH) OCT circle scans for quality and (2) generates structured clinical reports that include glaucoma diagnosis and sector-wise…
Neural recording technologies now enable simultaneous recording of population activity across many brain regions, motivating the development of data-driven models of communication between brain regions. However, existing models can struggle…
Predicting the future evolutionary trajectory of SARS-CoV-2 remains a critical challenge, particularly due to the pivotal role of spike protein mutations. It is therefore essential to develop evolutionary models capable of continuously…
With the advent of diffusion models, new proteins can be generated at an unprecedented rate. The motif scaffolding problem requires steering this generative process to yield proteins with a desirable functional substructure called a motif.…