AIMC Journal:
bioRxiv

Showing 1251 to 1260 of 4956 articles

Direct Detection and Atomic Modeling of Ligands in Cryo-EM Maps Using Deep Learning

bioRxiv Jun 4, 2026
Cryogenic electron microscopy (cryo-EM) has become an increasingly important for structure-based drug discovery by enabling characterization of interactions between macromolecules and small-molecule ligands. However, computational interpretation of l...
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Evolution and mechanism of MEIS2-mediated forelimb specialization in bats

bioRxiv Jun 4, 2026
The genomic basis of limb adaptations in tetrapods is thought to be largely driven by changes in gene regulation. However, the mechanisms by which regulatory programs evolve are not well understood. In bats, wing membrane development has been shown t...
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Relational homeostatic scaling supports stable rate-code transmission under noise and heterogeneity

bioRxiv Jun 4, 2026
Reliable transmission of firing-rate signals through neural circuits requires synaptic coupling to remain within a narrow regime shaped by neuronal heterogeneity and noise. Outside this regime, classical theory predicts that activity will dissipate o...
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Spatiotemporal Decoding of Explore-Exploit Decisions in the Human Brain

bioRxiv Jun 3, 2026
Adaptive behavior requires flexibly shifting between exploiting familiar rewards and exploring novel opportunities. These explore-exploit decisions are implemented via a distributed brain network, anchored in frontopolar cortex (FPC) and ventromedial...
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MAGI: Mechanistic Consequences of Genetic Variants via Genomic Foundation Models

bioRxiv Jun 3, 2026
Clinical variant interpretation requires mechanism-aware evidence to guide diagnosis and clarify the biological consequences of mutations. However, existing computational predictors and genomic foundation models largely function as black boxes, provi...
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The machine-learning classifier ALLCatchR2 identifies 20 T-ALL subtypes across cohorts and age groups

bioRxiv Jun 3, 2026
T-cell acute lymphoblastic leukemia (T-ALL) comprises molecularly diverse subtypes, but robust cross-cohort validations and operational gene-expression definitions are lacking. To establish a gene-expression-anchored framework for T-ALL subtyping, we...
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HyperNiche: Learning Heterophilic Cellular Niches with Hypergraph Neural Networks

bioRxiv Jun 3, 2026
We propose HyperNiche, a hypergraph-based framework for modeling higher-order, heterogeneous cellular niches from spatial transcriptomics data. Unlike conventional graph-based methods that rely on pairwise similarity and tend to produce homogeneous c...
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SciCore-Omics: a tri-modal foundation model unifying histology, spatial transcriptomics and language for spatial biology

bioRxiv Jun 3, 2026
Histomorphology and spatial transcriptomics capture complementary aspects of tissue biology, but their relationships remain difficult to extract, align, and interpret at scale. Existing foundation models typically connect histology, omics, or languag...
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CodeCytos: AI-assisted spatial molecular imaging analysis via code-augmented agent action space

bioRxiv Jun 3, 2026
Conventional tissue image analysis software provides foundational capabilities for cellular analysis, including segmentation, morphological feature extraction, and spatial organization analysis; however, these tools often require manual intervention ...
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AdventML: Advanced Enzyme Temperature Prediction with Transformer-Based Embeddings and Resampling Strategies

bioRxiv Jun 3, 2026
Accurate prediction of enzymes' optimal catalytic temperature (Topt) is crucial in biotechnology, as enzymes with extreme Topt values are highly desirable for reactions at extreme temperatures and for their general stability. However, experimental de...
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