Samuel L. Wolock

Scrublet detects scRNA-seq doublets by simulating doublets from random cell pairs and scoring cells by simulated-doublet neighbor fraction, reaching AUC 0.99 on human-mouse mixtures.

This paper identifies fundamental limits on inferring gene expression dynamics from single-cell snapshots and introduces an algorithmic approach to constrain dynamic solutions.

The paper uses single-cell transcriptomics and fate potential assays to map the erythroid differentiation trajectory from multipotent hematopoietic stem cells in mice, revealing novel regulators and transcriptional programs.

SPRING visualizes high-dimensional single-cell expression data using force-directed layouts, revealing more detailed biological relationships and greater reproducibility than existing methods.