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bioRxiv

Showing 2081 to 2090 of 4956 articles

Developing SCL2205 : A Protein Sequence-based Spatial Modelling Dataset for the Protein Language Model Frontier

bioRxiv Mar 10, 2026
Deep learning (DL) has advanced computational genome annotation tasks such as protein sub-cellular localisation (SCL) prediction. Nonetheless, its potential remains underutilised, primarily because of the limited availability of high-quality referenc...
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Reaction-Conditioned Enzyme Discovery with Multimodal Deep Learning

bioRxiv Mar 10, 2026
The precise mapping between chemical transformations and enzymatic catalysts underpins the complexity of metabolic networks. Conventional discovery methods, tethered to sequence homology or structural alignment, are inherently blind to new reactions....
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PhosSight: a Unified Deep Learning Framework Boosting and Accelerating Phosphoproteome Identification to Enable Biological Discoveries

bioRxiv Mar 10, 2026
Protein phosphorylation is a key regulator of signaling, with mass spectrometry (MS) based phosphoproteomics serving as the premier technology for its analysis. However, phosphorylation profiling is hindered by acquisition biases: Data-Dependent Acqu...
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A minimal transcriptomic signature predicts intravascular tumor extension in renal cell carcinoma

bioRxiv Mar 9, 2026
Renal cell carcinoma (RCC) with venous tumor thrombus, termed renal intravascular tumor extension (RITE), is associated with aggressive behavior and poor clinical outcomes. Yet, its underlying molecular determinants remain incompletely defined. We an...
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Exploring sex-related Biases in Deep Learning Models for Motor Imagery Brain-Computer Interfaces

bioRxiv Mar 9, 2026
Motor imagery (MI) brain-computer interfaces (BCIs) are promising technologies for neurorehabilitation. In this context, deep learning (DL) models are increasingly being used to decode the mental imagination of movement. However, countless studies ac...
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NLP-12/Cholecystokinin signaling stabilizes sensory dendritic structure and protects neuronal healthspan in Caenorhabditis elegans

bioRxiv Mar 9, 2026
Aging selectively degrades neuronal structure and function, yet the signals that actively preserve neuronal integrity over adult life remain incompletely defined. In Caenorhabditis elegans, the PVD sensory neuron develops progressive excessive higher...
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Structured Schemas for LLM-Modeler Collaboration in Quantitative Systems Pharmacology Model Calibration

bioRxiv Mar 9, 2026
Quantitative systems pharmacology (QSP) models require calibration data from published literature, yet manual curation produces inconsistent documentation while large language model (LLM) extraction exhibits hallucination and fabrication errors unacc...
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Beyond model-free Pavlovian responding: a two-stage Pavlovian-instrumental transfer paradigm

bioRxiv Mar 9, 2026
Background: Pavlovian responding is a core component of behavior and can be measured via Pavlovian-instrumental transfer (PIT), where Pavlovian responses bias instrumental actions. Standard single-lever PIT paradigms, which assess responses using a s...
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A Novel Glycoproteomics Platform for High-Throughput Identification of Disease-Associated Glycoforms

bioRxiv Mar 9, 2026
Glycosylation is a critical post-translational modification, and its aberrant forms are potent disease biomarkers; however, the comprehensive, site-specific identification of all glycosites and glycoforms across an entire proteome remains prohibitive...
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Benchmarking 80 binary phenotypes from the openSNP dataset using deep learning algorithms and polygenic risk score tools

bioRxiv Mar 9, 2026
Genotype-phenotype prediction plays a crucial role in identifying disease-causing single nucleotide polymorphisms and precision medicine. In this manuscript, we benchmark the performance of various machine/deep learning algorithms and polygenic risk ...
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