Xinyun Cao

RNAP-seq: in vitro genome-scale transcription reveals preferential RNA polymerase pausing on Clostridioides difficile antisense DNA

The paper introduces RNAP-seq, an in vitro method to study transcriptional pausing, and finds that CdfRNAP pauses more frequently at T-rich antisense regions compared to EcoRNAP.

Interactive analysis of single-cell data using flexible workflows with SCTK2.0

SCTK2.0 provides an integrated toolkit for scRNA-seq analysis with a graphical interface, enabling non-programmers to perform end-to-end workflows and generate reproducible reports.

Programming bacteria to sense environmental DNA for multiplexed pathogen detection

This paper develops DNA sensors in Bacillus subtilis to detect environmental DNA from multiple pathogens with high specificity and sensitivity, using fluorescent reporters for multiplexed detection.

Comprehensive generation, visualization, and reporting of quality control metrics for single-cell RNA sequencing data

The paper introduces a pipeline for generating, visualizing, and reporting quality control metrics for scRNA-seq data, improving standardization across platforms.