AIMC Journal:
bioRxiv

Showing 141 to 150 of 4935 articles

Plasticity Dynamics Improves Reservoir Performance on Mixed-Timescale Memory Tasks

bioRxiv Sep 29, 2026
Mixed-timescale signals are ubiquitous in natural stimuli and real-world applications, yet they remain challenging to process with recurrent neural networks. Reservoir computing offers an efficient framework for temporal processing, but extending its...
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PathoBERT: A Hybrid Attention-Based Genomic Language Model for Read-Level Bacterial Pathogenicity Prediction

bioRxiv Sep 29, 2026
Motivation Although recent deep learning models have achieved promising results on read level classification tasks, their robustness to realistic sequencing conditions, sensitivity to read length, and ability to support reliable genome level inferenc...
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Single-cell profiling resolves gain- and loss-of-function mechanisms in CASR to advance mechanism-aware variant classification

bioRxiv Sep 29, 2026
Multiplexed assays of variant effect (MAVEs) and computational methods have advanced variant classification but have struggled to distinguish the molecular mechanism of variants with sufficient accuracy, limiting utility for multi-mechanism genes. He...
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Disease relevance and replicability of deep learning gene expression prediction

bioRxiv Sep 29, 2026
Recent deep learning (DL) models predict average gene expression levels from DNA sequences with high overall correlation to measured values. We examine these DL models through the lens of disease research. The seemingly high overall performance of DL...
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De novo minibinders targeting RH5 achieve nanomolar inhibition of blood-stage malaria replication

bioRxiv Sep 29, 2026
Malaria kills {approx}600,000 people annually despite recently deployed vaccines. The parasite's blood-stage invasion of erythrocytes, driven by the essential, non-redundant interaction between Plasmodium falciparum RH5 and erythrocyte basigin, remai...
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Biological rationales from language models enable leakage-resistant forecasts of target-indication success

bioRxiv Sep 29, 2026
Identifying which target-indication (T-I) hypotheses can translate into clinical success remains a central challenge in drug discovery. We present PRIORITI (Prospective Rationale-Informed Outcome Reasoning for Integrated Target-indication Intelligenc...
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RNASeek: A Cross-Phyla Generative Foundation Model for Multipurpose RNA Modeling and Reinforcement Learning-Based Design

bioRxiv Sep 28, 2026
RNA plays central roles in regulating information flow and provides a versatile substrate for engineering biological functions. While large language models (LLMs) have transformed natural language processing and protein design, a general framework co...
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PlanktonLake-CEREEP- A Freshwater Plankton Image Dataset with Semi-Automated Label Cleaning

bioRxiv Sep 28, 2026
Plankton plays a fundamental role in aquatic ecosystems, influencing biogeochemical cycles and serving as a key food source for many organisms. Recent high-throughput imaging technologies enable the rapid acquisition of large volumes of microscopic i...
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MuseDrift: Navigating Protein Evolutionary Manifolds with Conditional Discrete Diffusion

bioRxiv Sep 28, 2026
Protein engineering often requires variants that differ from a wild-type (WT) sequence by a specified amount while remaining structurally and functionally plausible. Controlling WT similarity alone does not specify which residues should change or how...
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Neural Processes with Normalizing Flows for Wheat Height Estimation

bioRxiv Sep 28, 2026
In this work, we investigate modeling plant traits over time using neural processes, a class of machine learning models that learn distributions over functions. Plant growth is an inherently stochastic process with complex dynamics measured mostly at...
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