AIMC Journal:
bioRxiv

Showing 1671 to 1680 of 4956 articles

Interpreting Omics Data Analysis with Large Language Models for Disease Target and Drug Discovery

bioRxiv May 5, 2026
In biomedical scientific discovery, synthesizing prior knowledge from the literature is an essential component of interpreting numerical omics data analyses for disease target identification and drug discovery. Large language models (LLMs) alone can ...
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A universal taxonomic and functional human gut microbiome model for disease classification and phenotype discovery

bioRxiv May 5, 2026
The human gut microbiome is a powerful indicator of host health, yet its compositional nature, high sparsity, and inter-individual variability complicate downstream analysis. Here, we introduce two complementary approaches to characterize gut microbi...
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Learning the structural diversity in random protein sequence space

bioRxiv May 5, 2026
The universe of possible protein sequences is astronomically large, yet our understanding of the sequence-structure relationship is confined to the infinitesimal fraction used currently by life. Determining whether "foldable" architectures are rare s...
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Machine learning approaches for the identification and analysis of enterotoxin genes in Staphylococcus aureus genomes

bioRxiv May 5, 2026
Staphylococcus aureus produces a broad range of enterotoxins that act as superantigens, disrupting host immune responses and resulting in a myriad of clinical symptoms. However, large-scale analyses determining enterotoxin gene diversity, lineage str...
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Transfer Learning Enables Drug-Target Interaction Prediction in Data-Scarce One-Carbon Metabolism

bioRxiv May 5, 2026
Predicting drug-target interactions (DTIs) with deep learning offers opportunities to accelerate drug discovery, yet performance is constrained by the scarcity of target-specific training data. This is a particular challenge for mitochondrial one-car...
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immuneKG: An Immune-Cell-Aware Knowledge Graph Framework for Target Discovery in Immune-Mediated Diseases

bioRxiv May 5, 2026
Biomedical knowledge graphs have emerged as foundational infrastructure for AI-driven drug discovery, yet their translational impact on novel target identification in immune-mediated diseases remains limited. Here we present immuneKG, a multimodal kn...
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Comparative single-cell transcriptomic roadmap of mammalian fetal ovarian development

bioRxiv May 5, 2026
Early ovarian development establishes the cellular basis of female reproduction, yet its cellular composition and developmental dynamics remain poorly characterized across mammalian species. Here, we generated a cross-species single-cell transcriptom...
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EffectorGeneP: accurate gene annotation in pathogen genomes from infection transcriptomes

bioRxiv May 5, 2026
Accurate gene annotation is crucial for inference of biological knowledge from genomes. However, non-canonical genes such as orphan or single-exon genes as well as those residing in rapidly evolving regions are routinely dismissed in annotation pipel...
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Fast and Ultra-Capable Protein Design: Advancing the Frontier Through Atomistic SE(3)-Equivariance with Genie 3

bioRxiv May 5, 2026
Despite the breakneck pace of progress in protein design methodology, frontier problems remain challenging, with leading methods struggling to design high-affinity binders, scaffold multiple functional motifs, or stabilize large multi-domain proteins...
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STAT: A multi-agent framework for integrated and interactive spatial transcriptomics analysis

bioRxiv May 5, 2026
Spatial transcriptomics analysis often involves a myriad of computational methods across diverse platforms, leading analysts to spend excessive time on data assembly rather than deriving biological insights. Current AI solutions tend to either oversi...
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