AIMC Journal:
bioRxiv

Showing 181 to 190 of 4935 articles

HR-FRGS: A Novel Biomarker Discovery Protocol using Dual Layer Hypergraph Learning for NGS RNA Sequence Data

bioRxiv Sep 25, 2026
Biomarker discovery from high-dimensional RNA sequencing data remains challenging. Conventional methods such as differential expression analysis, pairwise protein-protein interaction networks, and weighted gene co-expression network analysis suffer f...
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Robust Inference of Phage Host Infection Dynamics from Sparse Single-Cell Transcriptomic Profiles in Pseudomonas aeruginosa

bioRxiv Sep 25, 2026
Phage therapy is providing a benefit to a limited number of people. To date those who have received phage therapy typically have done so via an IND expanded access mechanism, colloquially referred to as compassionate release, new clinical trials are ...
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Learning Environment-Associated Marker Rankings with Attention-Based Graph Neural Networks

bioRxiv Sep 25, 2026
Genotype-by-environment interactions can complicate plant breeding because genetic effects may vary across weather regimes, locations, and years. Although genomic prediction models can use dense marker data to predict complex crop traits, they often ...
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From Language-Cognition Coupling to AI Foundations: An Evolutionary Perspective on 13,415 SNVs in 33 Language/Cognition Genes

bioRxiv Sep 25, 2026
This study aims to quantify the genetic similarity of different species (from fish to humans) to the human reference genome (pp6, Homo sapiens.GRCh38) based on the allele presence/absence patterns of 13,415 SNV loci from 33 language/cognition-related...
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Limitations of general protein language models and public TCRpMHC data in training specificity prediction models

bioRxiv Sep 25, 2026
T cell receptor (TCR) specificity prediction is critical for understanding adaptive immunity and for enabling the development of therapeutic interventions. Current machine learning models for predicting TCR-peptide-MHC interactions perform poorly, de...
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Agentic campaign control for high-throughput de novo binder design

bioRxiv Sep 24, 2026
Progress in artificial intelligence has produced a rapidly growing ecosystem of methods for de novo protein design. With access to many specialized and often complementary tools, how does one use them effectively, especially with a finite compute bud...
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Satellite-gene abundance fusion reveals global hotspots of ocean ecosystem services

bioRxiv Sep 24, 2026
The Ocean sustains planetary health through climate regulation, biodiversity, and essential ecosystem services. Plankton underpins these processes by driving primary production, sustaining food webs, and mediating carbon sequestration. Yet the spatia...
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Generative Neuromorphic Programming of Mammalian Cells

bioRxiv Sep 24, 2026
Cells make decisions through densely interconnected regulatory networks that compute graded, analog responses. Synthetic biology has made cells programmable, but the field's dominant abstractions poorly match the analog nature of cells. Designing ana...
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WHAT IS NORMAL? MULTIMODAL CHARACTERIZATION OF NON-DISEASED PEDIATRIC DUODENAL BIOPSIES USING MACHINE LEARNING IMAGE ANALYSIS AND TRANSCRIPTOMICS

bioRxiv Sep 24, 2026
Pediatric endoscopy is performed only when clinically indicated, limiting access to healthy duodenal tissue. Biopsies with duodenal no pathologic abnormality (NPA) are often used as controls despite the presence of symptoms or inflammatory disease fo...
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A comprehensive Arabidopsis transcription factor binding atlas reveals pervasive positional and syntactic organization of their DNA binding

bioRxiv Sep 24, 2026
Transcription factor (TF) binding underlies gene regulation, yet the determinants of TF-DNA interactions across plant genomes remain incompletely understood. Here, we present a comprehensive atlas of TF binding in Arabidopsis thaliana, generated by r...
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