MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

Greg Finak, Andrew McDavid, Masanao Yajima, +9

Genome biology

EngineeringGeneticsTranscriptional ChangesTranscriptomics TechnologyGenomics +19

Stromal gene expression predicts clinical outcome in breast cancer

Greg Finak, Nicholas Bertos, François Pépin, +9

Nature Medicine

Breast OncologyMedicineCancer GenomicsBreast CancerMolecular Diagnostics +3

Critical assessment of automated flow cytometry data analysis techniques

Nima Aghaeepour, Greg Finak, Holger H. Hoos, +4

Nature Methods

Safety and immunogenicity of a mRNA rabies vaccine in healthy adults: an open-label, non-randomised, prospective, first-in-human phase 1 clinical trial

Martin Alberer, Ulrike Gnad-Vogt, Henoch S. Hong, +11

The Lancet

VaccinationVaccine SafetyVaccine DevelopmentMrna RabiesImmunology +4

Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments

Andrew McDavid, Greg Finak, Pratip K. Chattopadyay, +5

Bioinformatics

COMPASS identifies T-cell subsets correlated with clinical outcomes

Lin Lin, Greg Finak, Kevin Ushey, +22

Nature Biotechnology

T-regulatory CellImmunologyAutoimmunityImmunotherapyMedicine +2

Standardizing Flow Cytometry Immunophenotyping Analysis from the Human ImmunoPhenotyping Consortium

Greg Finak, Marc Langweiler, Maria Jaimes, +31

Scientific Reports

Vaccination induces HIV broadly neutralizing antibody precursors in humans

David J. Leggat, Kristen W. Cohen, Jordan R. Willis, +54

Science

OpenCyto: An Open Source Infrastructure for Scalable, Robust, Reproducible, and Automated, End-to-End Flow Cytometry Data Analysis

Greg Finak, Jacob Frelinger, Wenxin Jiang, +6

PLoS Computational Biology

EngineeringOpen Source InfrastructurePathologySpatial OmicsBioinformatics Database +19

Regulation of endocytosis via the oxygen-sensing pathway

Yi Wang, O. Roche, Mathew S Yan, +14

Nature Medicine

Cell PhysiologyOxygen-sensing PathwaySignal TransductionPhysiologyEndocytic Pathway +9