Chromatin organization underlies essential genome functions, but its nanoscale organization remains challenging to capture and quantify with precision. Atomic force microscopy (AFM) offers direct structural readouts of DNA and chromatin, yet translat... read more
Mass spectrometry is used to identify chemicals to which humans are exposed, but it cannot directly determine molecular structures. Instead, structures are inferred by matching experimental spectra to libraries of spectra constructed from analyses of... read more
Global climate change has increased the frequency and severity of stressful temperatures that freshwater fishes experience, necessitating rapid and sensitive methods to monitor wild populations. Tissues used to measure transcriptional responses tradi... read more
Thyroid cancer is a heterogeneous malignancy with variable outcomes, highlighting the need for reliable biomarkers and effective risk stratification. In this study, we implemented a multi-step integrative framework to identify distinct prognostic bio... read more
Identifying robust gene expression signatures from transcriptomic studies with small sample sizes remains one of the most persistent challenges in computational biology. Gene expression datasets have thousands of features but only a handful of biolog... read more
Interventions that extend lifespan do not necessarily preserve healthspan, the portion of life spent in good health. This disconnect has intensified interest in biological aging clocks as quantitative proxies of organismal health. However, most exist... read more
Objective: High-quality metadata is essential for scientific discovery, yet sparse annotations in rapidly growing repositories leave many biologically relevant details uncaptured. We evaluated whether large language models (LLMs) can accurately infer... read more
Tracking dynamic moving objects in the external world is ethologically important for many organisms. Recent experiments have examined neural dynamics supporting such behaviors by employing visually-guided pursuit in freely moving rodents, yet computa... read more
Variants of uncertain significance (VUS) in USH2A represent a critical interpretive challenge in inherited retinal disease, with over 70% of ClinVar submissions for this gene currently unresolved. We developed UshEffect-3D, a gene-specific, structure... read more
Recent perturbation atlases profile transcriptional responses to thousands of targeted perturbations in a reference cell type. Generalising these datasets across lineages and individuals has been problematic, however, as similar baseline transcriptom... read more
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