Christian E. Loo

A theoretical and experimental framework enables low-coverage sequencing for accurate quantification of genome-wide cytosine modification levels

The paper develops and validates Sparse-Seq, a low-coverage sequencing method for accurate quantification of 5mC and 5hmC levels, showing it is more accessible and less variable than mass spectrometry.

Mapping Protein Occupancy on DNA with an Unnatural Cytosine Modification in Bio-orthogonal Contexts

The paper introduces an unnatural DNA base modification to map protein-DNA occupancy in non-CpG contexts, revealing binding patterns of LexA in bacterial promoters.

Incorporating FDR into the assessment of nanopore sequencing for the reliable detection of DNA modifications in real applications

This paper introduces modFDR, a framework to assess nanopore sequencing for DNA modification detection, showing it reliably detects abundant modifications but has high false positives for rare ones.

Low-input and single-cell methods for Infinium DNA methylation BeadChips

The paper develops low-input and single-cell methods for Infinium DNA methylation BeadChips, improving detection rates and data quality for small sample sizes.