Developing cutting-edge single-cell sequencing approaches to probe gene regulation mechanisms and cell fate transitions in development and diseases

Technology development

We are keen on developing sequencing technologies to probe epigenenetic landscapes in tiny amounts of samples, single-cells and in situ, which provides a means to better understand the gene regulation mechanisms in complex tissues. We have developed SurfaceChIP and MID-RRBS for ultra-sensitive genome-wide histone modification and DNA methylation profiling from hundreds of cells. We also developed simultaneous high-throughput ATAC and RNA expression with sequencing (SHARE-seq), a powerful powerful approach for co-profiling chromatin and RNA from the same single cells. We are actively developing tools to further understand the interaction between different modalities (multi-‘omics’) and its impact on cell behavior.

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Gene regulation inference in cell differentiation

One of the most fundamental questions in biology is to understand how the cells spontaneously grow and proliferate, and how the cells respond to external stimulation. For example, when experiencing chronic stress or acute stress, the diverse skin populations respond quite differently which leads to hair loss and hair greying. Leveraging sequencing technologies and other approaches, we demonstrated the molecular driver underlying the stress response. We also developed a computational approach, Chromatin potential, to infer the lineage-fate choice of skin stem cells during cell fate transition. I will continuously investigate the mechanism of cell fate shift by building new computational tools and exploring the cell behavior under other stimulations.

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Genetic clues in aging and cancers

Leveraging single-cell measurement across cancer progression and aging, we seek to identify the molecular driver underlying these intricate processes. We are particularly interested in lung cancers, hematopoietic malignancies, and skin and brain aging.