Genetics

Exploring the oasis of plant genomes: From genetic variations to function and beyond.

For decades, plant geneticists have been striving to elucidate the biological mechanisms by which genetic variations (GVs) influence complex traits. Plant breeders, in turn, create, select, and combine desirable GVs based on a full evaluation of GVs effects. However, deciphering the functional consequences of GVs within the vast plant genome is akin to searching for an oasis in the desert- a daunt...

Maternal obesity and the embryonic rewiring of feeding circuits: beyond the hypothalamus.

Maternal obesity disrupts fetal hypothalamic development by inducing structural changes in feeding circuits, such as reduced hypothalamic precursor proliferation, blunted energy-status sensing, and aberrant wiring of melanocortin pathways, ultimately promoting long-term obesity risk in offspring. Although this hypothalamic reprogramming has dominated research, emerging evidence supports a broader,...

Identification and Validation of Glycosylation-Related Biomarkers in the Hippocampus for Alzheimer's Disease Diagnosis and Drug Repurposing.

As a crucial type of post-translational modification, glycosylation plays a fundamental role in maintaining cellular homeostasis and is closely associ...

High-throughput design of defined microbial consortia for crop protection.

BACKGROUND: Synthetic microbial communities (SynComs) are changing the mechanism of crop protection that ensures global sustainability in agricultural...

Spiking Neural Membrane Systems with Temporal Coding.

Spiking neural P systems (SNP systems) are a type of neuromorphic membrane computing models abstracted based on neuron spiking mechanisms, with nonlin...

Redesign to Mechanism: Interpretable AI Reveals Determinants of Protein Hydrate Binding.

Natural antifreeze proteins (AFPs) demonstrate exquisite structure-function relationships, while in silico designs often struggle to achieve a balance...

Liquid Biopsy in Modern Oncology: Advances, Challenges, and Future Perspectives in Early Cancer Detection, Minimal Residual Disease, and Dynamic Patient Monitoring.

PURPOSE OF REVIEW: Liquid biopsy has emerged as a minimally invasive approach to overcome the limitations of tissue biopsy in oncology. This review ai...

An integrated machine learning and chemical space network approach for the design of potent epigenetic HDAC6 inhibitors for targeting neurological disorders.

Histone deacetylase 6 (HDAC6) is increasingly recognized as a key regulator of cytoskeletal dynamics and intracellular transport in both neurodevelopm...

10 years of CRISPR/CAS genomic engineering in Yarrowia lipolytica.

Yarrowia lipolytica is a versatile cell factory widely used in bioprocesses for producing lipids, organic acids, and other high-value compounds. Histo...

Overcoming Shortcut Learning in RNA-Small Molecule Modeling via Bias-Matched Decoys and Structure-Aware Network Design.

Targeting RNA with small molecules represents a promising frontier in drug discovery, yet current computational models are often hindered by the physi...

Molecular and spatial differences in the tumor microenvironment of high-grade serous ovarian cancers with short versus long-term survival.

OBJECTIVE: Survival of patients diagnosed with advanced-stage high-grade serous ovarian cancer (HGSOC) varies widely. Understanding the biological and...

Habitat-informed MRI Radiomics and Deep Learning Fusion for Short-Term Survival Prediction in Patients with Glioblastoma: Exploratory Radiogenomic and Immune Correlates.

RATIONALE AND OBJECTIVES: To develop and externally validate a preoperative multicontrast MRI stacking model integrating unsupervised habitat radiomic...

Explainable machine learning identifies features and thresholds predictive of immunotherapy response.

The identification of reliable predictors for immunotherapy response remains a critical challenge in precision oncology. Here, we integrated patient c...

Coformer: a deep learning-based framework for cross-environment and multi-year cotton phenotype prediction and interpretation.

Accurate prediction of key agronomic traits in cotton is crucial for advancing its genetic improvement and enabling breeding-by-design. However, when ...

Identification of diagnostic markers for diabetic kidney disease by weighted gene co‑expression network analysis and machine learning.

Diabetic kidney disease (DKD) represents a major complication associated with diabetes mellitus, notably contributing to patient morbidity and mortali...

Epigenetic research methods and animal models for intervertebral disc degeneration (Review).

Intervertebral disc degeneration (IVDD) is increasingly recognized as a systemic collapse of the epigenetic regulatory network, driven by cellular sen...

Curcumin alleviates depression-aggravated psoriasis by targeting MMP9-regulated apoptotic pathways.

Depression and psoriasis are highly comorbid, yet their shared molecular mechanisms remain poorly understood. Utilizing cross-sectional data from NHAN...

Integrative single-cell and bulk transcriptomic analysis identifies lesion-associated gene signatures for prognostic stratification and therapeutic guidance in head and neck squamous cell carcinoma.

BACKGROUND: Head and neck squamous cell carcinoma (HNSCC) is a highly heterogeneous malignancy with poor prognosis and variable response to therapy. E...

Whole-genome sequencing revealed the genomic origin of Solanum demissum Lindl., a Mexican hexaploid wild potato species.

BACKGROUND: Solanum demissum Lindl. (2n = 6x = 72) is the most popular wild species in potato breeding because of its resistance to late blight, cause...

Spliceread: improving canonical and non-canonical splice site prediction with residual blocks and synthetic data augmentation.

Accurate splice site prediction is fundamental to understanding gene expression and its associated disorders. However, most existing models are biased...