定量生物学

Natural products, as metabolites from microorganisms, animals, or plants, exhibit diverse biological activities, making them crucial for drug discovery. Nowadays, existing deep learning methods for natural products research primarily rely…

Confidence estimates are often "detection-like" - driven by positive evidence in favour of a decision. This empirical observation has been interpreted as showing that human metacognition is limited by biases or heuristics. Here, we show…

Few studies have investigated the diagnostic utilities of biomarkers for predicting bacteremia among septic patients admitted to intensive care units (ICU). Therefore, this study evaluated the prediction power of laboratory biomarkers to…

In the early stages of development, Drosophila melanogaster embryos possess very fast and well-coordinated cell cycles. In the cell cycle, CDK activity is essentially regulated by binding CDK and CycB to form an active complex and by…

Brain-DNN alignment is usually assessed through stimulus-level correspondence or stimulus-set geometry. Inspired by category theory, we operationalize a different question: do brain and model preserve the same candidate transformations…

Understanding how neural population responses represent sensory information is a central problem in systems neuroscience. One approach is to define a representational geometry on stimulus space in which distances reflect how reliably…

Higher-order interactions are increasingly recognized as a key component of ecological dynamics. However, we show that higher-order Lotka-Volterra dynamics can, in some scenarios, be accurately reproduced by effective pairwise models fitted…

Multiple stable states - the coexistence of two or more distinct ecological configurations under identical environmental conditions - have attracted sustained interest in ecology, yet the field still lacks a unified framework connecting…

Decoding approaches are widely used in neuroscience and machine learning to compare stimulus representations across neural systems, such as different brain regions, organisms, and deep learning models. Popular methods include decoding…

Designing functional protein sequences that satisfy multiple desired properties is a core research focus of protein engineering. Prior methods struggle with inability or inefficiency when dealing with numerous, often conflicting,…

We study the geometry of the mean fitness surface of replicator systems and its relationship to evolutionary trajectory dynamics. Using the symmetric--antisymmetric decomposition of the fitness landscape matrix, we derive an explicit…

We introduce PhenixCraft, a fully automated pipeline for building atomic models from cryo-EM density maps. By integrating AlphaFold predictions, we enhance the map-segmentation step in Phenix during model building, addressing challenges…

Biological systems operate under simultaneous energetic and informational constraints, yet direct evidence that such constraints shape real metabolic networks is limited. The Network-Weighted Action Principle predicts that networks under…

Intrinsic channel noise is fundamental to neural processing, yet its state-dependent nature, when constrained by strict Feller boundary conditions, is often overlooked. Here, we demonstrate that this bounded multiplicative noise is not…

Automated single-cell annotation is difficult when the most abundant genes are not the most discriminative ones, or when a target state is poorly covered by a fixed reference atlas. GPTCelltype-style one-shot prompting allows large language…

Diabetic foot ulcers (DFUs) are a severe complication of diabetes associated with significant morbidity, amputation risk, and healthcare burden. Developing effective continuous monitoring frameworks requires first establishing reliable…

Spatial structure and species interactions jointly shape the dynamics and biodiversity of ecological systems, yet most theoretical models either neglect spatial heterogeneity or sacrifice analytical tractability. Here, we provide a unified…

Mutualisms are key for structuring ecological communities, but they are sensitive to environmental change and fluctuations in population size. Consequently, how mutualisms achieve stability remains an open question in ecological theory.…

We investigate a model for a mosquito-borne epidemic in which human hosts may adopt protective behaviour against vector bites in response to information on both past and current disease prevalence. Assuming that mosquitoes can also feed on…

The origin of life required the emergence of metabolism, an autocatalytic network of enzymatic reactions that synthesize amino acids, nucleotides and cofactors. At the origin of metabolism there were no enzymes--how did it start? Empirical…