Dirichlet Process Mixture Model for Correcting Technical Variation in Single-Cell Gene Expression Data. - Sandhya Prabhakaran; Elham Azizi; Ambrose J. Carr; Dana Pe'er (ICML, 2016)

A Single-Cell Immune Map of Normal and Cancerous Breast Reveals an Expansion of Phenotypic States Driven by the Tumor Microenvironment. - Ambrose J. Carr (2018)

starfish: scalable pipelines for image-based transcriptomics. - Shannon Axelrod; Matthew Cai; Ambrose J. Carr; Jeremy Freeman; Deep Ganguli; Justin T. Kiggins; Brian Long; Tony Tung; Kevin A. Yamauchi (J. Open Source Softw., 2021)