Genetic Architecture of Cell Autonomous and Multicellular Circuits

Mapping gene expression regulatory networks in circulating immune cells.
YeResearchTopic4 v03

One of our research aims is to understand the genetic architecture and how the immune circuits are controlled in cells. To achieve this aim, we have examined 140 transcription factors by pooled CRISPR perturbation and scRNA-seq in 160,000 CD4+T cells. Among all the regulators, 134 were shown to affect T cell functionalization. We have further mapped 194 pairs of interacting regulators, including known (e.g. BATF and JUN) and novel interactions (e.g. ETS1 and STAT6). In addition, we were able to identify the natural genetic variants with effects on gene expression that were modified by CRISPR perturbation. We are confident that by integrating CRISPR genome engineering and single-cell genomics approach, we can effectively map the gene expression regulatory networks and the relationship between genetic regulation-cell function in circulating immune cells.


Alumni Research Team

Rachel Gate, Co-founder of Dropprint Genomics

Andrew Lu, MSTP student at UCLA/CalTech

Meena Subramaniam, Co-founder of Dropprint Genomics

Selected Publications

Mapping Gene Regulatory Networks of Primary CD4+ T Cells Using Single-Cell Genomics and Genome Engineering
bioRxiv. 2019

Research Team

MinCheol Kim

Graduate Student, MSTP, Bioengineering

David Lee

Staff Research Associate


Media highlights of Ye Lab's research.
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