Genetics

Accurate profiling of single-cell alternative transcript start sites by correcting RNA degradation.

The generation of transcript variants via alternative utilisation of transcription start sites (TSSs...

Experimentally validated deep learning control of protein aggregation.

The identification of aggregation-prone regions in proteins and their suppression through mutations ...

Prospective genomic and epidemiologic surveillance of Klebsiella pneumoniae in a tertiary NICU.

BACKGROUND: Klebsiella pneumoniae complex (Kp) is a relevant neonatal pathogen colonizing preterm in...

MS-ConTab: Multi-Scale Contrastive Learning of Mutation Signatures for Pan-Cancer Representation and Stratification.

MOTIVATION: Understanding pan-cancer level mutational landscape offers critical insights into the mo...

Multi-Omics and Machine Learning Analyses Reveal PIK3CG, PRKCD, and TRIM22 as Potential Markers of Poor Prognosis and Immune Activation in Glioblastoma.

BACKGROUND: Glioblastoma (GBM) is one of the most aggressive brain tumors with a poor prognosis desp...

Enhancing the Catalytic Activity of Thermococcus kodakarensis RuBisCo via Computer-Aided Rational Design.

Ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCo) is a prime target for enhancing the photos...

MethylSense: high accuracy machine learning-based diagnostics for Aspergillus fumigatus infection in chickens using host cell-free DNA methylation and Nanopore sequencing.

Avian aspergillosis, caused by Aspergillus fumigatus (Af), lacks sensitive antemortem diagnostics. E...

Repurposing genome skimming data for non-model plant functional phylogenetics: A case study in Rhodiola.

BACKGROUND: Investigating the evolution of functional genes in non model plants is often hindered by...

Implementation of pathogen genomics in clinical microbiology laboratories.

SUMMARYPathogen genomics, including whole-genome sequencing (WGS) and clinical metagenomics, is a tr...

A decade of evidence linking gut microbiome dysbiosis to depression: a computational meta-analysis of mechanistic pathways: 2014-2024.

OBJECTIVES: The gut microbiome-gut-brain axis (MGBA) has been associated in the pathophysiology of d...

A self-supervised electrocardiogram foundation model for empowering cardiovascular disease prediction and genetic factor discovery.

Electrocardiogram (ECG) has been widely used in the diagnosis of cardiovascular disease (CVD). Curre...

Augmented prediction of multi-species protein-RNA interactions using evolutionary conservation of RNA-binding proteins.

RNA-binding proteins (RBPs) play critical roles in the regulation of gene expression. Recent studies...

Integrating bulk and single-cell RNA sequencing identifies and validates lactylation-related signatures in diabetic foot ulcers.

Telomere-to-Telomere Assembly Using HERRO-Corrected Simplex Nanopore Reads.

Telomere-to-telomere (T2T) phased assemblies are emerging as a benchmark for reference-quality genom...

Machine learning-advanced hydrogel-based transcription-coupled positive-feedback CRISPR/Cas13a analysis for novel microRNA signatures in differential diagnosis of non-small cell lung cancer.

MicroRNAs (miRNAs) hold significant potential as biomarkers for the precise diagnosis of non-small c...

Integrating microbial bioremediation, multi-omics, and emerging technologies for polycyclic aromatic hydrocarbon (PAHs) detoxification.

Environmental organic pollutants, identified as Polycyclic Aromatic Hydrocarbons (PAHs), are widespr...

GR2ST: Spatial Transcriptomics Prediction based on Graph-Enhanced Multimodal Contrastive Learning.

MOTIVATION: Spatial transcriptomics techniques capture gene expression data and spatial coordinates,...

Machine Learning-Guided Synthetic Microbial Communities Enable Functional and Sustainable Degradation of Persistent Environmental Pollutants.

Persistent environmental pollutants require diverse microbial metabolic capabilities for effective d...

Predicting DNA replication-related protein expression at the nucleus level from HE: A deep learning study with same-specimen paired data.

BACKGROUND: The inference of molecular information from hematoxylin-eosin (HE) specimens may reduce ...

CD27 Neutralization Attenuates Rheumatoid Arthritis by Suppressing.

Rheumatoid arthritis (RA) is a chronic autoimmune disease characterized by joint inflammation and de...

Enhancing genomic prediction for key production traits in chickens through ultrasound phenotyping and multi-model comparative analysis.

BACKGROUND: Growth performance and carcass traits are economically vital in poultry breeding. In Wen...