Genetics

A genome-wide coverage-based pipeline for the identification of host-derived candidate biomarkers in blood cell-free DNA.

We have created a new data-analysis pipeline for the discovery of host-derived candidate biomarkers in blood cell-free DNA sequencing data. Unlike approaches that rely on specific molecular or genetic signatures, our method leverages the coverage distribution of cell-free DNA sequences mapped to a reference genome, applying statistical analyses to identify informative short genomic regions for bio...

Prediction of Clinically Meaningful Improvement After Internet-Delivered Cognitive Behavioral Therapy for Depression and Anxiety Disorders: Machine Learning-Based Predictive Model Development and Temporal Validation Study.

BACKGROUND: Up to 50% of patients treated with internet-delivered cognitive behavioral therapy (ICBT) for depression and anxiety disorders do not experience clinically significant symptom reduction. Identifying these patients prior to the initiation of ICBT can support treatment planning. OBJECTIVE: The aim of this study was to enhance baseline prediction of clinically meaningful improvement in pa...

Integrated Identification of NAD⁺ Metabolism-Associated Candidate Genes.

Migraine is one of the most disabling neurological diseases globally; however, a significant proportion of patients do not respond to current treatmen...

A hybrid deep learning framework for WT or mutant peptide prediction using p53 mutation data.

p53 is a tumor suppressor protein that maintains genome integrity. Single amino acid variations (SAVs), especially hotspot mutations (such as R175 and...

Identification of senescence-related genes in diagnosing idiopathic pulmonary fibrosis via integrating bioinformatics analysis and machine learning.

Idiopathic pulmonary fibrosis (IPF) is a chronic, progressive lung disease characterized by persistent alveolar epithelial injury and aberrant tissue ...

A novel approach to UAV control: Fuzzy PID-based ANFIS (FPIDANFIS).

This paper presents a novel hybrid control strategy, the Fuzzy PID based Adaptive Neuro-Fuzzy Inference System (FPIDANFIS), designed to enhance the tr...

Reimagining antimicrobial resistance: AI-driven predictive epidemiology and the C-AMRE framework for next-generation antibiotic discovery.

Antimicrobial Resistance (AMR) has evolved from a clinically observed phenomenon into a complex, dynamic, and partially predictable evolutionary proce...

Integrating landscape genomics and machine learning to analyze the genetic structure and specific molecular markers of Chinese dairy goats (Capra hircus).

BACKGROUND: During long-term artificial selection, China has developed indigenous dairy goat populations with breed-specific traits and environmental ...

The complexity cliff in natural product discovery: why full automation remains elusive and the case for collaborative intelligence.

Covering: 1992 to 2025Natural products contribute to roughly half of FDA-approved small-molecule drugs, yet their discovery has remained surprisingly ...

From Environmental Lead Exposure to Colorectal Cancer: Integrated Transcriptomic and Genetic Analyses Identify HMOX1 as a Prioritized Candidate.

Colorectal cancer (CRC) is a leading cause of cancer mortality, and the mechanisms linking lead exposure to CRC remain unclear. In this study, we inte...

Identifying GADD45A as a potential R-loop regulator in sepsis via machine-learning and multi-omics analysis.

BACKGROUND: Sepsis is a life-threatening syndrome characterized by dysregulated immune responses, while the molecular basis of immune dysfunction rema...

Generative design of bacteriophages with genome language models.

Many important biological functions arise not from single genes but from complex interactions encoded by entire genomes. We report the first generativ...

Identification of EIF4A1 as a candidate molecular indicator of autism spectrum disorder using integrative bioinformatic and biological methods.

Autism Spectrum Disorder (ASD) is a heterogeneous neurodevelopmental condition with complex genetic and molecular mechanism. Identifying reliable mole...

Uncovering the molecular landscape of young-onset diffuse gastric cancer: A relieff-based feature selection analysis on RNA-Seq data.

BACKGROUND: Diffuse Gastric Cancer (DGC) is an aggressive subtype with a poor prognosis and a lack of specific biomarkers, representing a critical unm...

Population genomics reveals ginseng domestication and ginsenoside biosynthesis.

Ginseng (Panax ginseng), a valuable medicinal plant, is cultivated for the bioactive ginsenosides with cardiovascular protective effects that are abun...

Point-of-care detection for respiratory diseases: From samples and biomarkers to principles and applications.

Early screening can significantly reduce the severe morbidity and mortality of respiratory diseases and alleviate the burden on public healthcare syst...

Unveiling the power of TIIC: A prognostic tool for esophageal adenocarcinoma.

BACKGROUND: Esophageal adenocarcinoma (EAC) remains a lethal malignancy with limited prognostic tools for guiding immunotherapy. Tumor-infiltrating im...

Life beyond 6,000 genes: From sequence to synthesis in a post-genomics era.

The publication of the Saccharomyces cerevisiae genome sequence thirty years ago marked a defining shift in modern biology, establishing yeast as the ...

Anti-virulence activity of peptide C7-3 and its derivatives against Pseudomonas aeruginosa.

BACKGROUND: Pseudomonas aeruginosa is a highly resistant pathogenic bacterium known for causing infections,particularly in immunocompromised patients....

Di(2-ethylhexyl) Phthalate (DEHP) Exposure Exacerbates Subarachnoid Hemorrhage by Inducing Astrocyte-Mediated Inflammation and Oxidative Stress through the ADORA1/PI3K-Akt/MAPK Axis.

Di(2-ethylhexyl) phthalate (DEHP) is a widespread plasticizer, but its role in subarachnoid hemorrhage (SAH) remains unclear. Integrating network toxi...