Alexandre Pellan Cheng

This paper develops SMART-PTA for single-cell whole-genome and transcriptome sequencing, revealing clonal evolution in aged human esophageal tissue over 70 years.

This paper introduces ppmSeq, a sequencing technology that improves accuracy and efficiency in detecting SNVs by sequencing both DNA strands, showing superior performance in clinical applications like ctDNA detection.

This paper introduces MRD-EDGE, a machine learning platform for ultrasensitive ctDNA detection in plasma WGS, showing improved sensitivity and broader applicability for MRD monitoring.

This study applies low-cost whole genome sequencing to detect circulating tumor DNA at high sensitivity in plasma samples, achieving error rates as low as 10^-7 and enabling cancer monitoring without matched tumor sequencing.

The paper introduces Coffee-seq, a metagenomic DNA sequencing method that reduces environmental contamination, and applies it to detect infections and microbial signatures in clinical samples.

This study uses cell-free DNA methylation profiling in plasma to identify organ-specific injury and predict COVID-19 severity in hospitalized patients.

This study demonstrates that cell-free DNA analysis can detect multiple post-transplant complications in HCT recipients through methylation, metagenomic, and genomic profiling.

The paper introduces LBBC, a tool to reduce noise in metagenomic cfDNA sequencing, improving detection of urinary tract infection while minimizing false positives.

This paper introduces a cell-free DNA metagenomic sequencing assay that integrates host damage response to infection, showing it can accurately capture microbial composition and tissue damage in urinary tract infections.