定量生物学
Soft X-ray tomography provides detailed structural insight into whole cells but is hindered by experimental artifacts such as the missing wedge and by limited availability of annotated datasets. We present SimAQ, a simulation pipeline that…
Recent voxel-wise multimodal brain encoding studies have shown that multimodal large language models (MLLMs) exhibit a higher degree of brain alignment compared to unimodal models. More recently, instruction-tuned multimodal (IT) models…
Alcohol Use Disorder (AUD) is a prevalent addictive disorder affecting an estimated 29.5 million Americans. It is characterized by impaired control over alcohol consumption despite negative consequences. The number of diagnostic criteria…
We analyse a model that describes the propagation of many pathogens within and between many species. A branching process approximation is used to compute the probability of disease outbreaks. Special cases of aquatic environments with two…
Artificial vision models are often evaluated against the human visual cortex by measuring how accurately their internal representations predict brain responses. However, prediction accuracy alone does not indicate which dimensions of the…
Background: Face morphometry has been shown to work as a diagnosis tool in a set of syndromes. Face similarities are usually indications of more complete genetic similarities. Purpose: To show preliminary results on the face morphometry…
Phylogenetic networks generalize phylogenetic trees by allowing reticulate evolutionary events such as horizontal gene transfer and hybridization. Among the many subclasses of phylogenetic networks, orchard networks have attracted…
Purpose: To investigate psychophysically the ability of low vision individuals with central visual field loss (CFL) to perform a visually-guided pointing task in a virtual reality environment. Methods: Patients with CFL (n=25, ages = 67-90…
Embryology has long played a foundational role in shaping our scientific understanding of animal evolution. In recent decades, growing evidence has also highlighted its role in cancer. Despite the indisputable similarities between embryonic…
Advancements in clinical Brain-Computer Interfaces (BCIs) depend on precise and reliable signal interpretation. However, the high-dimensional and noisy nature of data captured from both implanted and non-implanted BCIs poses significant…
Proteolysis-targeting chimeras (PROTACs) represent a promising therapeutic modality that induces targeted protein degradation by hijacking the ubiquitin-proteasome system. However, rational PROTAC design remains challenging due to the…
Understanding how humans and artificial intelligence systems predict and plan by interacting with their environment is a fundamental challenge at the intersection of neuroscience and machine learning. Most brain-encoding studies focus on…
Proteins are constructed from a limited alphabet of ~20 amino acids, yet the origins and selection of this specific alphabet are unresolved. One largely overlooked aspect is whether elemental composition constrains the range of viable…
The vast chemical space of possible small molecules, estimated at 10^60 compounds for molecules composed of just C, N, O, and S, is only sparsely occupied by biology. We propose that where life selects molecules within this space…
While coding regions in the genome have a direct interpretation in terms of protein products, significant fractions are non-coding and yet control essential biological functions. Unlike the genetic code, there is no "lookup table" that…
While intracortical Brain-Computer Interfaces (iBCIs) that decode imagined handwriting have achieved high communication rates for Latin scripts, they rely on observing every character in the alphabet during training. This poses a challenge…
One of the main causes of death around the globe is malaria. Researchers have sought to develop predictive models for malaria outbreaks based on meteorological data, climate data and the breeding cycle of Plasmodium, the causative agent of…
Cold-chain storage limits access to insulin for hundreds of millions of people; a thermally protective patch polymer could help, but the design space is too large for exhaustive experiment. Starting from that problem, we narrow to an…
Features in language models have life history: they emerge, persist, and die during training, yet the importance of that history remains largely unexplored. We find evidence of a persistent representational backbone, which we identify in…
Protein language models (pLMs) have shown strong potential for zero-shot prediction of missense variant effects, yet systematic benchmarking on viral proteins remains limited, a critical gap given the need for proactive tools that can…