AIMC Journal:
bioRxiv

Showing 801 to 810 of 4938 articles

Transformer models of mutation risk at base-pair resolution identify non-coding hotspot cancer driver mutations

bioRxiv Jul 10, 2026
Recurrent somatic mutations reveal cancer drivers, but in whole genomes many non-coding hotspots are passengers generated by localized mutational processes. We developed MutFormer, a transformer/convolutional neural net model that predicts base-pair-...
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InsectDCT: A generalized pipeline for detection, taxonomic classification, and tracking of insects in camera-trap recordings

bioRxiv Jul 10, 2026
Automated monitoring of insect pollinators in natural environments with insect camera traps and trained deep learning algorithms provides novel data for insect ecological studies. However, efficient and accurate image recognition analysis of the reco...
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Safeguarding open-weight genomic foundation models through weight locking

bioRxiv Jul 10, 2026
Background. Genomic foundation models can dramatically accelerate biological research by learning general-purpose representations of genomic data that transfer across tasks, enabling researchers to predict variant effects, regulatory elements, molecu...
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Interaction-finder: automated literature-based discovery of biological entity associations with quote-level provenance

bioRxiv Jul 10, 2026
Identifying interactions between biological entities is a cornerstone of molecular research, but assembling such lists from the literature is slow and tedious. For many research questions, no curated database exists, leaving researchers to survey the...
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Evaluating the cross-species transferability and scaling of sequence-to-function predictions in AlphaGenome

bioRxiv Jul 10, 2026
Deep learning models that predict molecular phenotypes directly from DNA sequence offer a powerful framework for interpreting genomic variation. Recently, AlphaGenome was introduced as a deep sequence-to-function architecture capable of predicting ob...
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Two-tower models for genomic prediction of reproductive outcomes and sex-specific fertility liabilities: simulation insights

bioRxiv Jul 9, 2026
Many biological characteristics arise by interactions between more than one biological organism or unit. Fertilization success in sexually reproducing species represents such an extended phenotype where both mates are required to be fertile for a suc...
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Predicting subclonal TP53 mutations from tumor spatial transcriptomics data using a graph convolutional neural network

bioRxiv Jul 9, 2026
Spatial transcriptomics (ST) has revolutionized our understanding of tumor biology but inherently lacks information on the upstream somatic driver mutations. We developed a spatially-aware graph convolutional neural network (MuT-GCNN) that infers TP5...
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Characterising AlphaFold 3s ability to predict T cellantigen specificity

bioRxiv Jul 9, 2026
T cells are a key part of the adaptive immune system. Using their surface-bound T cell antigen receptors (TCRs), these cells scan peptides and other antigens presented to them by major histocompatibility complex molecules (MHCs) on the surface of cel...
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Photopatterned spatiotemporal organisation and in situ differentiation of 3D human cortical networks

bioRxiv Jul 9, 2026
Modelling human cortical microcircuitry in vitro requires platforms that recapitulate both the compositional complexity and spatial architecture of developing neural tissue. Current organoid and assembloid models often rely on the bulk fusion of pre-...
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Dendritic Wave Recurrent Neural Networks

bioRxiv Jul 9, 2026
Wave recurrent neural networks (wRNNs) are biologically inspired recurrent architectures that use traveling-wave dynamics to support sequence learning and memory. However, their input-to-hidden pathway remains relatively simple compared with biologic...
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