AIMC Journal:
bioRxiv

Showing 1741 to 1750 of 4956 articles

Neural dynamics outside task-coding dimensions drive decision trajectories through transient amplification

bioRxiv Apr 29, 2026
Linking neural activity to behavior typically involves identifying activity subspaces that encode task information, such as stimuli, memory, and choices. However, it is unclear whether activity in these "coding dimensions" drives behavior or merely r...
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Quantifying information stored in synaptic connections rather than in firing activities of neural networks

bioRxiv Apr 29, 2026
A cornerstone of our understanding of both biological and artificial neural networks is that they store information in the strengths of synaptic connections among the neurons. However, in contrast to the well-established theory for quantifying inform...
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Explainable Prototype Booster: Enhancing Latent Representations of Foundation Models for Gene Expression Prediction

bioRxiv Apr 29, 2026
Spatial transcriptomics (ST) is a cutting-edge technology that measures gene expression while preserving spatial context and generating pathology-grade tissue images. Although ST has enabled numerous discoveries and demonstrated a huge application po...
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Learning dynamics of unsupervised deep learning reveal epoch-specific genetic architectures of brain morphology

bioRxiv Apr 28, 2026
Representation learning is an emerging paradigm for deriving phenotypes from complex measurements (e.g., imaging) for genetic discovery. However, the learning dynamics of deep neural networks, especially the evolution of representations during traini...
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Accurate ab initio gene prediction in eukaryotes with Tiberius in multiple clades

bioRxiv Apr 28, 2026
Eukaryotic genome annotation is currently bottlenecked by limitations in the generality, scalability and accuracy of computational methods. Deep learning approaches have recently achieved large improvements in ab initio gene prediction accuracy. We e...
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A Multi-modal LLM-Knowledge Fusion Framework for Predicting Single-cell Genetic Perturbation Effects

bioRxiv Apr 28, 2026
Understanding cellular responses to genetic perturbations is fundamental for drug discovery, yet experimental approaches face significant limitations in coverage and cost that prevent comprehensive mapping of cellular behavior. This has motivated the...
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Passive acoustic monitoring as a tool for early detection of invasive animal species: a systematic review and a case study

bioRxiv Apr 28, 2026
Invasive animal species are spreading rapidly across the globe, creating an urgent need for efficient early-detection and monitoring tools. Passive acoustic monitoring has become an established method in biodiversity research, but its application to ...
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Protein Function Prediction with Pretrained ProtT5 Embeddings and Gradient Boosting

bioRxiv Apr 28, 2026
Protein function prediction remains a central challenge in computational biology due to the extreme sparsity and long-tail distribution of Gene Ontology (GO) [1] annotations. Advances in protein language models enable the extraction of dense, fixed-l...
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Improving Biological Sequence Prediction with AlphaFold2 Representation

bioRxiv Apr 28, 2026
Motivation: Accurate prediction of functional sites from primary sequences is essential for elucidating biological mechanisms and advancing rational drug design. However, traditional sequence-based features areinherently unable to capture complex str...
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A Modular Framework for Automated Segmentation and Analysis of AFM Imaging of Chromatin Organization

bioRxiv Apr 27, 2026
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...
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