AIMC Journal:
bioRxiv

Showing 671 to 680 of 4938 articles

Activity and specificity trade-offs in adenine base editors

bioRxiv Jul 22, 2026
Adenine base editors (ABEs) are CRISPR effectors that introduce A-T to G-C transitions in the genome using a nucleotide deaminase fused to a Cas protein. ABEs have been evolved to have very high editing efficiency, but off-target editing effects comp...
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Speed-dependent place- and time-field shifts do not require explicit temporal coding

bioRxiv Jul 22, 2026
Place and time cells are widely thought to provide complementary representations of spatial location and elapsed time in the hippocampus. Recent experiments reported CA1 neurons whose place and time fields shift systematically with running speed, sug...
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Beyond eplet counts: machine learning integration of evolutionary distance and electrostatic divergence improves prediction of HLA-DQ donor-specific antibody formation after kidney transplantation

bioRxiv Jul 22, 2026
Background. The emergence of donor-specific antibodies (DSA) against HLA-DQ reduces graft survival and limits future transplant options. Current practice predicts DSA development from HLA antigen mismatches or unique eplet counts (HLAMatchmaker), but...
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Using Deep Learning to predict replication timing reveals baseline control of genomic DNA sequence

bioRxiv Jul 22, 2026
Human DNA replicates according to a precise schedule: certain regions are replicated early, while others replicate later in the cell cycle. The DNA sequence and the epigenome are both indicative for replication timing (RT), their relative contributio...
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scLEMBAS: Context-Aware Modeling of Signaling Pathway Activity at Single-Cell Resolution

bioRxiv Jul 22, 2026
Cells sense and integrate extracellular cues through intracellular signaling networks that reshape transcription factor activity to dictate cellular responses. Signaling activity is difficult to decipher: it is non-linear, and it contains extensive f...
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Deep Learning Based Cross-Modality Histological Brain Section Registration in Multiple Species Using Synthetic Images

bioRxiv Jul 22, 2026
Large-scale brain mapping increasingly relies on integrating histological imaging datasets within standardized anatomical reference frameworks. To accomplish this, registration techniques are used to align imaging datasets between different modalitie...
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Muon Reduces the Training Cost of Regulatory DNA Transformers

bioRxiv Jul 22, 2026
Gene-therapy design depends on identifying regulatory sequences that drive the right level, timing, and cell-type specificity of expression. Regulatory DNA models offer a way to prioritize such sequences computationally before committing candidates t...
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GEM-GPT Enables Personalized Cell Type-Resolved Therapeutic Design for Systems Pharmacology

bioRxiv Jul 22, 2026
Generative artificial intelligence (AI) has emerged as a powerful framework for drug discovery, yet most current approaches follow one-drug-one-gene target-based paradigms that struggle to capture the complexity and heterogeneity of chronic and syste...
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Biologically Plausible Dopamine-Modulated STDP Model of Pavlovian Learning in Spiking Neural Networks

bioRxiv Jul 22, 2026
Spike-timing-dependent plasticity (STDP) and dopamine (DA) are fundamental to reward-based learning and memory formation. A widely used DA-modulated STDP model explains how neural networks associate stimuli with delayed dopaminergic rewards through a...
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MGM2 as a Unified Foundation Model for Microbiome World Exploration

bioRxiv Jul 22, 2026
Microbiomes are information-rich biological systems, yet most computational analyses still reduce communities to cohort-specific abundance tables. Here we introduce MGM2, a multimodal foundation model pretrained on 1,821,291 MicrobeAtlas samples and ...
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