Xiaoyue Wang

Machine learning-based definition of cellular senescence reveals pro-senescence potential implication in lung adenocarcinoma

This study introduces PreCSenM, a machine learning model that quantifies cellular senescence and identifies HDAC inhibitors as senescence inducers in lung adenocarcinoma.

Comprehensive evaluation and prediction of editing outcomes for near-PAMless adenine and cytosine base editors

The paper evaluates near-PAMless base editors and develops a predictive model to forecast editing outcomes, expanding the scope of gene editing.

Types of cis- and trans-gene regulation of expression quantitative trait loci across human tissues

The paper investigates cis- and trans-regulation of eQTLs across human tissues, identifying different regulatory network types and mediator roles.

Aperture: Accurate detection of structural variations and viral integrations in circulating tumor DNA using an alignment-free algorithm

Aperture detects structural variations and viral integrations in ctDNA with high sensitivity and specificity using an alignment-free algorithm.

Calling small variants with universality and Bayesian-frequentist hybridism

UVC improves small variant calling accuracy across diverse sequencing data and outperforms existing callers in multiple benchmarks.

SCSA: a cell type annotation tool for single-cell RNA-seq data

SCSA automatically annotates cell types in scRNA-seq data using a score model combining DEGs and marker confidence, achieving high precision in real datasets.