bioRxiv

Showing 4781 to 4790 of 5021 articles

Resolving Heterogeneity in Major Depression: Overcoupling and Undercoupling Subtypes Exhibit Differential Treatment Response and Molecular Pathways

bioRxiv Jan 1, 2025
Major depressive disorder (MDD) exhibits significant heterogeneity whose neurobiological mechanisms remain elusive. Alterations in morphological-functional coupling (MFC) have been observed in MDD. This study aims to investigate MDD subtypes based on...
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Recurrent neural network dynamics may not purely reflect cognitive strategies: A commentary on Ji-An et al. (Nature, 2025)

bioRxiv Jan 1, 2025
One of the fundamental goals of behavioural science is to explain seemingly complex human and animal behaviour in terms of simple mechanistic principles. Ji-An, Benna, & Mattar1 (henceforth, JBM) recently proposed a novel analytic and interpretative ...
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STODE: A Deep Generative Framework for Continuous Spatiotemporal Dynamics in Spatial Transcriptomics

bioRxiv Jan 1, 2025
Spatial transcriptomics offers detailed molecular insights but struggles to capture continuous tissue dynamics due to experimental constraints and destructive sampling. Traditional optimal transport (OT) methods attempt to link time points but often ...
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Brain-like neural dynamics for behavioral control develop through reinforcement learning

bioRxiv Jan 1, 2025
During development, neural circuits are shaped continuously as we learn to control our bodies. The ultimate goal of this process is to produce neural dynamics that enable the rich repertoire of behaviors we perform. What begins as a series of “babble...
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ADHD Medications and Preadolescent Brain Structure: Patterns of Cortical Attenuation from the ABCD Study

bioRxiv Jan 1, 2025
Attention-deficit/hyperactivity disorder (ADHD) is the most common neurodevelopmental disorder in the U.S., and the stimulant and nonstimulant medications used to treat ADHD are among the most widely prescribed treatments in youth. Stimulants—includi...
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Scalable prediction of symmetric protein complex structures

bioRxiv Jan 1, 2025
All life relies on proteins to function, yet accurately modeling protein structures that exceed ≈ 10, 000 amino acids or have higher-order geometries remains difficult. Existing solutions are limited to specific scenarios, require considerable comput...
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Harnessing Contextual Embeddings: A Deep Learning Framework for Predicting PCR Amplification Using BERT Tokenization

bioRxiv Jan 1, 2025
Polymerase Chain Reaction (PCR) is a widely used molecular biology technique to amplify DNA sequences. PCR amplification is affected by factors such as binding dynamics and primer-template interactions. This study aims to reduce the time and cost of ...
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An AI-driven approach for nanobody affinity maturation

bioRxiv Jan 1, 2025
B7-H3 (CD276), an immunoregulatory checkpoint molecule overexpressed in numerous cancers, is a promising therapeutic target. Nanobodies possess unique advantages for targeting B7-H3, such as small size, high stability, and the ability to bind cryptic...
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Comparative Analysis of Pathology Foundation Models for Automated Detection of Tertiary Lymphoid Structures in H&E-Stained Digital Pathology Images

bioRxiv Jan 1, 2025
Tertiary lymphoid structures (TLS) have been observed in solid tumors and have been associated with better outcomes in patients treated with immunotherapy, but their dynamic nature makes identifying TLS in clinical samples challenging. Recently, path...
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HalluDesign: Protein Optimization and de novo Design via Iterative Structure Hallucination and Sequence design

bioRxiv Jan 1, 2025
Deep learning has revolutionized biomolecular modeling, enabling the prediction of diverse structures with atomic accuracy. However, leveraging the atomic-level precision of the structure prediction model for de novo design remains challenging. Here,...
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