Ronald D.G. McKay

Expression bias in retinoic acid responsive genes defines variations in neural differentiation of human pluripotent stem cells

The paper identifies transcriptomic differences in human pluripotent stem cells that correlate with retinoic acid response and neural fate bias.

A single cell trajectory of human archetypal pluripotent stem cell differentiation to trophoblast stem cells reveals induction of endogenous BMP5/7 and GATA3 without transitioning through a naive state

This paper shows that primed human pluripotent stem cells can differentiate to trophoblast stem cells without becoming naive, using specific signaling conditions and revealing a transcriptional network involving BMP5/7 and GATA3.

Variation of human neural stem cells generating organizer states in vitro before committing to cortical excitatory or inhibitory neuronal fates

The paper models the progression of human neural stem cells in vitro, showing they transition through organizer states before committing to cortical excitatory or inhibitory neuronal fates.

Dissecting transcriptomic signatures of neuronal differentiation and maturation using iPSCs

The paper uses hiPSC transcriptomics to study neuronal differentiation and maturation across multiple conditions and develops a tool to estimate neuronal maturity.

A Latent Variable Model for Evaluation of Disparate Ratings of Stem Cell Colonies by Two Experts

This paper develops a statistical model to evaluate differences in pluripotency ratings of stem cell colonies by two experts, identifying shared and distinct features used in their assessments.

PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF

The paper introduces PatternMarkers and GWCoGAPS to identify data-driven biomarkers from whole-genome data using NMF, demonstrating their application on GTex data.