Shiyi Yang

This paper introduces a Shannon entropy-based method to filter high-quality nuclei in scATAC-seq data, improving signal-to-noise ratio and downstream analysis reliability.

The paper identifies distinct adipocyte subsets in human white adipose tissue with different metabolic profiles and links TSHZ3 to their regulation and metabolic disease associations.

Celda identifies transcriptional modules and cell subpopulations in scRNA-seq data, outperforming existing methods in detecting biological programs and cell types.

The paper introduces musicatk, a toolkit for analyzing mutational signatures, enabling preprocessing, analysis, visualization, and comparison to COSMIC database.

DecontX is a Bayesian method to remove ambient RNA contamination in scRNA-seq data, improving cell cluster separation and marker gene accuracy.