Genetics

Artificial intelligence (AI) uses in stereotactic radiosurgery (SRS): diagnosis with brain metastasis (BM) - A systematic review.

BACKGROUND: Brain metastases (BM) are the most common intracranial tumors in adults, and stereotactic radiosurgery (SRS) has become a mainstay of management. However, several diagnostic challenges persist in the SRS pathway, particularly the differentiation of radiation necrosis (RN) from true tumor progression, which conventional MRI and even advanced imaging techniques often cannot reliably reso...

Machine learning and language models for RNA structure prediction: Progress and perspectives.

RNA structure is central to the function of every RNA class yet the gap between annotated sequences and experimentally determined structures remains large. Computational methods to fill this gap have evolved from thermodynamic free energy minimization through supervised deep learning to self-supervised RNA language models trained on millions of sequences, progressively improving structure predicti...

Bisphenol A drives the comorbidity of non-alcoholic fatty liver disease and osteoarthritis by targeting RHOB: Integrated multi-omics, single-cell analysis, and experimental validation.

BACKGROUND: This study focuses on exploring the co-morbid mechanisms by which Bisphenol A (BPA) induces non-alcoholic fatty liver disease (NAFLD) and ...

Multi-task deep learning model for predicting EGFR mutation status in NSCLC.

Multi-task DL for predicting EGFR mutation status Epidermal growth factor receptor (EGFR) mutation status is a critical biomarker in the management of...

Exploring the use of machine and deep learning in genome-wide association studies: a comprehensive review.

The advent of high-throughput sequencing technologies has generated increasingly large and complex genomic datasets, necessitating analytical approach...

Exosomes in cancer drug resistance: dual roles in therapy failure and emerging precision therapeutics.

Exosomes play a key role in cancer, functioning both as drivers of drug resistance and as tools for therapy. Tumor-derived exosomes facilitate interce...

Comprehensive evaluation of angiogenesis-associated genes in papillary thyroid cancer using bulk RNA and single-cell sequencing data.

OBJECTIVE: The objective of this study is to explore the expression patterns of angiogenesis-related genes in papillary thyroid cancer (PTC) to enhanc...

Integration of network toxicology, machine learning and single-cell sequencing identifies candidate molecular links between air pollutants and hepatocellular carcinoma.

BACKGROUND: Epidemiological studies link long-term air pollution to an increased risk of hepatocellular carcinoma (HCC), but the underlying toxicologi...

BeanGPT: a domain-specific retrieval-augmented generation system for Phaseolus vulgaris research.

BeanGPT is a domain-specific retrieval augmented generation system designed to support research and breeding decisions in common bean (Phaseolus vulga...

Predicting breast cancer pathological complete response with clinical and imaging data.

INTRODUCTION: Pathological complete response (pCR) is a key prognostic indicator in breast cancer (BC) patients receiving neoadjuvant chemotherapy (NA...

Immune Repertoire Profiling Reveals Distinct Adaptive Immune Signatures of Dampness ZHENG Across Psoriasis, Rheumatoid Arthritis and Ulcerative Colitis.

Autoimmune diseases, including psoriasis (Ps), rheumatoid arthritis (RA) and ulcerative colitis (UC), pose significant health burdens worldwide. A mor...

Investigating the mechanisms of malignant progression in colorectal cancer using weighted gene co-expression network analysis and machine learning.

Colorectal cancer (CRC) remains a leading cause of cancer-related mortality worldwide. Understanding the complex molecular networks that underlie this...

Convergent genomic trajectories shape adaptation to life on land across animal lineages.

How animals repeatedly adapted to life on land is a central question in evolutionary biology. While terrestrialisation occurred independently across a...

Single cell and bulk transcriptomics reveal metabolic reprogramming biomarker signatures during extracorporeal membrane oxygenation for cardiogenic shock.

Cardiogenic shock (CS) patients receiving extracorporeal membrane oxygenation (ECMO) exhibit profound immune and metabolic disturbances, which may inf...

Integrating omics and artificial intelligence in pediatric environmental health: tools, challenges, and cohort-based insights.

BACKGROUND: Early childhood is a critical developmental period during which exposure to multiple environmental chemicals is common and increasingly re...

Decoding dry eye disease based on bioinformatics and in vitro experimental: the role of immune responses and natural product intervention.

BACKGROUND: Dry eye disease (DED), a prevalent ocular condition, has seen rising incidence rates. Aberrant inflammation and immune dysregulation are k...

Hypoxia tumor-associated macrophages facilitate hepatocellular carcinoma metastasis via uPA-uPAR pathway.

BACKGROUND: Hepatocellular carcinoma (HCC) arises within a hypoxic and immunosuppressive tumor microenvironment (TME), where tumor-associated macropha...

A serum-clinical composite model for prostate cancer diagnosis: multicenter validation and CRISPR/Cas13a-based detection.

BACKGROUND: Avoidable prostate biopsies remain a persistent weakness of prostate specific antigen (PSA)- and imaging-led prostate cancer (PCa) diagnos...

Mechanistic study on comorbidities of kidney stones and sepsis using transcriptome sequencing combined with single-cell spatial transcriptome sequencing.

Kidney stones and sepsis have a complex pathological association. Urinary obstruction and infection caused by kidney stones can easily induce sepsis, ...

The evolving bioinformatic approaches to identifying genetic targets of promise in cancers.

INTRODUCTION: The search for actionable genetic targets in cancer has evolved substantially over the past decade. Earlier approaches were focused on s...