Infectious Disease

COVID-19

Latest AI and machine learning research in covid-19 for healthcare professionals.

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AlphaRING-X: accurate interpretation of missense variant deleteriousness based on protein structural stability

Accurate interpretation of missense variants remains a significant challenge hindering genomic diagnosis. While state-of-the-art machine learning and deep learning predictors offer high accuracy, they often lack the transparency required for clinical evidence weighting. To bridge this gap between accuracy and clinical utility, we developed AlphaRING-X. AlphaRING-X is an open-source framework that ...

Identification of SASP-associated biomarkers and regulatory mechanisms in diabetic foot ulcers based on transcriptomics and experimental validation

Diabetic foot ulcers (DFU) constitute a major complication arising from diabetes mellitus. Emerging research findings have underscored the pivotal contribution of cellular senescence to the pathophysiological development of wounds exhibiting delayed healing; nevertheless, the molecular regulatory networks governing this process in DFU pathogenesis remain incompletely elucidated DFU-related transcr...

Social isolation upregulates takeout expression in female Drosophila melanogaster to promote sucrose feeding

Drosophila melanogaster provides a model system to examine how environmental stress interacts with sex to induce changes in brain function and behavio...

DeepRank-Ab: a scoring function for antibody-antigen complexes based on geometric deep learning

Gaining structural insights into the interactions between antibodies and their corresponding antigens is essential for understanding immune recognitio...

Analyzing associations and higher-order effects in multi-omics data with double machine learning

Integrative omics analyses enhance our understanding of disease mechanisms and biomarkers by investigating relationships among traits, omics measureme...

Structure and evolution-guided design of minimal RNA-guided nucleases

The design of RNA-guided nucleases with properties not limited by evolution can expand programmable genome editing capabilities. However, generating d...

Integrative multiomic analysis on single-nucleotide variants identifies candidate genes for human craniofacial malformation

Craniofacial malformation (CFM) is a congenital defect encompassing a wide range of phenotypic presentations and is largely driven by genetics. Despit...

Microenvironment-Inferred Genotyping: An Exclusionary Classifier for EGFR Amplification When DNA Testing Fails

EGFR amplification occurs in approximately 40-50% of glioblastoma (GBM) cases and is critical for treatment selection [1]. However, GBM tissue samples...

Multi-modal, multi-species, and multi-task latent-space model for decoding level of consciousness

Assessing the degree and characteristics of consciousness is central to caring for patients with Disorders of Consciousness (DoC), yet current standar...

MeLSI: Metric Learning for Statistical Inference in Microbiome Community Composition Analysis

Microbiome beta diversity analysis relies on distance-based methods including PERMANOVA combined with fixed ecological distance metrics (Bray-Curtis, ...

Integrative Genomic and Functional Analyses Reveal NINL as a Modulator of Tau Aggregation

Proteostasis dysfunction is a hallmark of frontotemporal dementia (FTD) and Alzheimer’s disease (AD), yet the genetic and molecular pathways that disr...

Combinatorial Protein Language Model–Guided Engineering of TEV Protease for Enhanced Stability and Production

Industrial enzyme engineering focuses on improvement of enzyme production yield, stability, catalytic activity, and substrate specificity, but often s...

FMAGJ: Fluorescence Microscopic Astrocyte Gap Junction Images Dataset

This work introduces a novel and specialized dataset of high-resolution fluorescence microscopic images focused on astrocytic gap junctions, aiming to...

Ω-Loop mutations control dynamics of the active site by modulating the hydrogen-bonding network in PDC-3 β-lactamase

The expression of antibiotic-inactivating enzymes, such as Pseudomonas-derived cephalosporinase-3 (PDC-3), is a major mechanism of intrinsic resistanc...

PlantCAD2: A Long-Context DNA Language Model for Cross-Species Functional Annotation in Angiosperms

Understanding how DNA sequence encodes biological function remains a fundamental challenge in biology. Flowering plants (angiosperms), the dominant te...

Sparse, random sampling is sufficient for central tolerance

Negative selection in the thymus limits autoimmunity by eliminating T cells that react strongly to self. Individual T cells, however, are only exposed...

Comprehensive perturbation of transcription factors in human cardiomyocytes reveals the regulatory architecture of congenital heart disease

Over 100 genes have been implicated in congenital heart disease (CHD), yet the genetic basis for >50% of CHD remains unexplained. A key challenge is t...

Neural categorization of visual words of alphabetic and non-alphabetic languages

Languages provide social-category markers that tag people as one or another social group. How does the brain sort words into different language catego...

Evaluating Deep Learning Based Structure Prediction Methods on Antibody-Antigen Complexes

AlphaFold2 significantly improved the prediction of protein complex structures. However, its accuracy is lower for interactions without coevolutionary...

DeepCAST-GWAS: Improving the Discovery of Genetic Associations Using Deep Learning-Based Regulatory SNP Prioritization

Genome-wide association studies (GWAS) have uncovered numerous variants linked to complex traits, yet power remains limited by the large multiple test...

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