Genetics

Genomic evolution of SARS-CoV-2 delta variants pre- and post-omicron emergence using alignment-free machine learning models.

The SARS-CoV-2 Delta variant (B.1.617.2), initially classified as a variant of concern due to its en...

AbDist: a lightweight, distance-based model for antibody affinity prediction as an interpretable benchmark for machine learning models.

Many complex models for antibody affinity prediction have been developed and successfully deployed. ...

MuTemAPR: Enhance Multilocation Patches with Template-Based Neural Program Repair.

Automated program repair (APR) has been studied extensively in recent years. Existing approaches mai...

Hyperspectral phenotyping reveals the genetic basis of grain quality in rice.

Rice (Oryza sativa) grain quality is an important breeding target, yet its genetic basis remains inc...

EPI-CAT: Prediction of enhancer-promoter interactions based on cross-attention transformer.

BACKGROUND: Enhancer-promoter interactions (EPIs) play a central role in transcriptional regulation,...

Identification and validation of NETs-associated biomarkers in osteoporosis with diabetes.

Osteoporosis and diabetes represent major global public health challenges. Neutrophil extracellular ...

Thymic health and immunotherapy outcomes in patients with cancer.

Although immunotherapy has revolutionized cancer treatment, many patients still experience limited b...

Improving the efficiency of high-fidelity Cas9 by enhancing PAM-distal interactions.

Engineering CRISPR enzymes for high fidelity often impairs cleavage activity. Meanwhile, a mechanist...

Identification of hypoxia-related gene signatures and molecular subtypes in chronic rhinosinusitis with nasal polyps.

OBJECTIVES: Chronic Rhinosinusitis with Nasal Polyps (CRSwNP) is a common and severe subtype of Chro...

Elucidating the mechanism of plasticizers associated with atherosclerosis through network toxicology, bulk RNA sequencing, and single-cell RNA sequencing analysis.

PURPOSE: This study aims to screen and identify potential atherosclerosis (AS) biomarkers associated...

Precision harvest: path to genetically modified organism-free crops with CRISPR by 2035.

Recent advances in clustered regularly interspaced short palindromic repeats (CRISPR) technology ena...

dMMR prediction from colorectal cancer histopathology: Leveraging non-tumor and low-magnification regions.

BACKGROUND AND OBJECTIVE: Colorectal cancer is the second leading cause of cancer-related mortality ...

Manufacturing-aware generative models enable petascale synthesis of designed DNA.

Generative modeling offers a robust framework for designing functional DNA, RNA and protein sequence...

BKDRP: a biological knowledge-driven approach for drug response prediction using multi-omics data in cancer cell lines.

BACKGROUND: Cancer heterogeneity results in patients with the same diagnosis responding differently ...

Metabolite-mediated plant immunity: From traditional defensors to artificial elicitors.

The accelerating global population growth and increasing environmental pressures driven by climate c...

Single-cell sequencing combined with transcriptome sequencing to reveal the molecular mechanisms related to integrated stress responses in atherosclerosis.

Adaptive Niching-Based Gradient-Accelerated Differential Evolution for High-Dimensional Nonconvex Optimization.

Nonconvex optimization presents significant challenges in many fields, particularly in training deep...

Molecular and Pharmacogenetic Marker Evaluation in Relation to the Toxicity and Clinical Response of Acute Lymphoblastic Leukemia Treatment in Indian Children (MPGx-INDALL): Protocol for a Prospective Observational Cohort Study.

BACKGROUND: Understanding interindividual variability in treatment response and toxicity is essentia...

Future directions in infertility research: the role of generative AI and large language models.

Male infertility remains an understudied yet significant contributor to global reproductive health c...

Composite pathway-guided Cox modeling for interpretable survival prediction in breast cancer.

Accurate survival prediction in breast cancer is essential for patient risk stratification and perso...

Twisted Tapestry of Tumors: Updates in Molecular Pathology of Breast Tumors.

This article explores the expanding role of molecular diagnostics in breast pathology. It emphasizes...