Motivation: Encoding antibodies (Abs) and nanobodies (Nbs) as mRNA enables in vivo production of therapeutic proteins. However, this approach requires meeting two species-dependent requirements: the mRNA encoding must support efficient expression in ... read more
Foundation models enable knowledge transfer across data modalities and tasks, yet foundation models for spatial biology remain in their early stages, largely centered on encoding single-cell representations in spatial context without fully integratin... read more
Spatial transcriptomic (ST) technologies enable the measurement of gene expression directly within tissue sections while preserving spatial context. Many ST platforms additionally generate paired histological images alongside spatially resolved trans... read more
Resolving causal genes from quantitative trait loci (QTL) remains fundamentally limited by linkage disequilibrium. We developed an interpretable machine learning framework that captures higher-order nonlinear genotype-phenotype relationships and allo... read more
Neural population activity typically evolves on low-dimensional manifolds and can be described as trajectories in attractor-like state spaces, including metastable switching among quasi-stable assembly states. Here we develop a unified definition of ... read more
Machine learning methods employing neuroimaging data are useful for monitoring the activation of neural representations. Specifically, they can be used to discern the brain networks engaged in processing specific categories of items. This approach ha... read more
Background: Plants produce diverse metabolites with potential benefits for human health. However, the metabolomes of plant callus cultures-cell cultures analogous to stem cells-remain poorly characterized in terms of their functional relevance. Metho... read more
Programmable design of RNA sequences with defined functions remains a central challenge in biology. Despite recent advances, existing RNA generative models lack robust controllable design capabilities and are constrained by short context windows, lim... read more
Off-target binding remains a leading cause of drug attrition, yet no method exists for rapidly quantifying small-molecule promiscuity across the human proteome. Here, we define promiscuity as the mean predicted binding affinity over 15,405 human prot... read more
Current neuroscience is shifting from simple controlled paradigms towards rich and ecologically valid naturalistic stimuli. Correspondingly, insights from historic "impoverished" artificial paradigms are considered to be seriously challenged by gener... read more
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