David N. C. Tse

OASIS provides a statistically valid and computationally efficient alternative to Pearson's X2 for analyzing contingency tables, demonstrating improved power and interpretability in genomic applications.

I-CONVEX improves de novo transcriptome recovery from long reads by providing fast, alignment-free isoform clustering with high consensus accuracy.

This paper introduces Spectral Jaccard Similarity, a method to estimate pairwise sequence alignments by addressing k-mer distribution biases, showing improved performance on PacBio reads.

The paper introduces a framework to correct differential expression analysis after clustering in single-cell RNA-Seq to avoid false discoveries caused by clustering-induced biases.

The paper determines the optimal sequencing depth for single-cell RNA-Seq as one read per cell per gene and identifies an empirical Bayes estimator as optimal for gene property estimation.

DendroSplit provides an interpretable clustering framework for single-cell RNA-Seq datasets, improving clarity and reducing subjectivity in clustering results.

HINGE improves repeat resolution in long-read genome assembly by distinguishing resolvable from unresolvable repeats, producing more finished assemblies than existing methods.