AIMC Journal:
bioRxiv

Showing 1501 to 1510 of 4956 articles

Hidden State Genomics: Graph-Based Analysis of Sparse Auto-Encoder Feature Activity in Genomic Language Models

bioRxiv May 16, 2026
Pre-trained genomic language model (gLM) representations have been anticipated to enable enhanced deep learning predictions on several genomics tasks, but current benchmarking has led to questions over what they actually encode. We studied this with ...
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Beyond next-word prediction: hierarchical linguistic composition drives LLM-brain alignment in time

bioRxiv May 16, 2026
The internal representations of large language models (LLMs) correlate, or "align" , with human neural activity during language comprehension. One view holds that this alignment reflects shared sensitivity to statistical patterns in LLMs and humans, ...
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AI predictions and the expansion of scientific frontiers: Evidence from structural biology

bioRxiv May 15, 2026
Artificial intelligence holds the potential to expand the frontier of scientific research, yet recent work has raised concern that it may instead narrow scientific attention to well-established areas. Here, leveraging the 2021 release of AlphaFold2 a...
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Bio-BLIP: A Multimodal Architecture for Transferable Reasoning in Genomic Variant Interpretation

bioRxiv May 15, 2026
Developing scientific hypotheses in biology requires integrating heterogeneous evidence across DNA sequence, gene context, protein function, and prior literature. Existing multimodal AI systems expose biological evidence to reasoning models through t...
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Human-like sequential sound-to-meaning transfer drives artificial speech comprehension

bioRxiv May 15, 2026
Artificial intelligence has reached a pivotal threshold. Multimodal large models can approach human-level speech comprehension by rapidly transforming sound into meaning. However, whether this process relies on human-like mechanisms remains unknown. ...
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Diffusion-based stimulus optimization reveals functional organization across higher visual cortex

bioRxiv May 15, 2026
Characterizing the fine-grained functional organization of human higher visual cortex remains a central challenge, as traditional neuroimaging experiments constrain the diversity of stimuli that can be sampled. In prior work we addressed this challen...
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Autobehaver: An AI-Based Pipeline for Animal Behavior Analysis

bioRxiv May 15, 2026
Behavior arises from the complex interplay between the nervous system, genetics, and the environment. High-resolution, high-throughput behavioral quantification is essential for dissecting biological function and the effects of genetic perturbation, ...
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Deep Learning for Cross-Domain Spatial Transcriptomic Modeling of Tissue Repair

bioRxiv May 15, 2026
Spatial transcriptomics enables investigation of tissue organization while preserving molecular and spatial information within intact tissues. However, existing computational methods primarily focus on clustering and batch integration and provide lim...
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S2F-agent: Skill-grounded agent for Sequence-to-Function computational genomics workflows

bioRxiv May 15, 2026
Sequence-to-Function (S2F) foundation models are revolutionizing genomic research, yet their fragmented ecosystem severely bottlenecks practical application by incompatible inputs, outputs, and runtime environments. General-purpose coding agents lack...
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Benchmarking long-context genome language models on biosynthetic gene clusters

bioRxiv May 15, 2026
Recent advances in language models for natural language processing have spread to the field of genomics, driving the development of genome language models (gLMs) to decipher genomic information. Cutting-edge long-context gLMs are promising approaches...
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