1686 papers
Shotgun-NF is a portable, modular, and reproducible Nextflow pipeline that unifies a comprehensive suite of tools for end-to-end shotgun metagenomics analysis, from raw sequencing data to strain-level comparative insights, while ensuring execution consistency across diverse computing environments through containerization and automated provenance tracking.
This study reports the first investigation in an Iraqi population, finding that the MLH1 −93G/A polymorphism is significantly associated with increased susceptibility to colorectal cancer and correlates with advanced disease progression, including higher histological grades, later TNM stages, and lymph node metastasis.
This study introduces a Random Forest-SHAP machine learning framework that successfully predicts microbiologically influenced corrosion risk by integrating novel quorum sensing biofilm community features with traditional environmental and microbial parameters, achieving an F1 score of 0.762 and demonstrating the predictive value of bacterial communication signals in corrosion assessment.
This paper presents a low-cost, user-friendly AI pipeline that combines simple image processing with an interactive, self-learning similarity-search method to enable pathologists to rapidly and accurately detect vascularization in histological images using modest computing resources and minimal manual labeling.
This paper argues that the frequent failure of geographic models to generalize across sites stems from a fundamental estimand mismatch in nested survey data, demonstrating that ecological inference is structurally equivalent to empirical risk minimization under domain generalization and requiring population-level holdout validation rather than standard individual-level cross-validation to ensure reliable spatial transfer.
This study presents BioGPT-ClinVar, a parameter-efficient fine-tuning framework using Low-Rank Adaptation (LoRA) to adapt the 150-million-parameter BioGPT model for genomic variant interpretation, demonstrating effective convergence on a curated ClinVar dataset while providing an open-source, reproducible pipeline for future clinical and surveillance applications.
This paper demonstrates that while trained quantum Kolmogorov–Arnold networks are often classically simulable via low-bond-dimension tensor networks, genuine quantum advantage can be preserved and made trainable by employing discrete-logarithm encodings that embed number-theoretic hardness without succumbing to barren plateaus.
This study employs an integrated computational workflow combining machine learning, virtual screening, and molecular dynamics to identify Febuxostat as a novel, stable S1PR1 modulator with therapeutic potential for multiple sclerosis.
This study reveals that the Drosophila lipid scramblase Xkr promotes apoptotic cell clearance by interacting with dORP9 at ER-plasma membrane contact sites to facilitate non-vesicular phosphatidylserine transport to the cell surface, thereby serving as an alternative caspase-independent pathway for "eat me" signal exposure.
This study demonstrates that simulated hypogravity reduces cardiovascular demand during walking while virtual reality modulates physiological responses by delaying heart rate increases, confirming the safety and efficacy of combining AlterG treadmills with VR for preparing crews for future lunar and Martian missions.