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Presented By: DCMB Seminar Series

Department of Computational Medicine & Bioinformatics Weekly Seminar

Yuchao Jiang (University of North Carolina), "Nonparametric Interrogation of Transcriptional Regulation in Single-Cell RNA and Chromatin Accessibility Multiomic Data"

Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC) Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC)
Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC)
Abstract:

Epigenetic control of gene expression is highly cell-type- and context-specific. Yet, despite its complexity, gene regulatory logic can be broken down into modular components consisting of a transcription factor (TF) activating or repressing the expression of a target gene through its binding to a cis-regulatory region. Recent advances in joint profiling of transcription and chromatin accessibility with single-cell resolution offer unprecedented opportunities to interrogate such regulatory logic. Here, we propose a nonparametric approach, TRIPOD, to detect and characterize three-way relationships between a TF, its target gene, and the accessibility of the TF’s binding site, using single-cell RNA and ATAC multiomic data. We apply TRIPOD to interrogate cell-type-specific regulatory logic in peripheral blood mononuclear cells and contrast our results to detections from enhancer databases, cis-eQTL studies, ChIP-seq experiments, and TF knockdown/knockout studies. We then apply TRIPOD to mouse embryonic brain data during neurogenesis and gliogenesis and identified known and novel putative regulatory relationships, validated by ChIP-seq and PLAC-seq. Finally, we demonstrate TRIPOD on SHARE-seq data of differentiating mouse hair follicle cells and identify lineage-specific regulation supported by histone marks for gene activation and super-enhancer annotations.

Hosted by: Joshua Welch, PhD

Speaker will be in-person and the seminar will be live-streamed via Zoom.

Zoom: https://umich-health.zoom.us/j/93929606089?pwd=SHh6R1FOQm8xMThRemdxTEFMWWpVdz09
Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC) Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC)
Yuchao Jiang (Assistant Professor in the Departments of Biostatistics and Genetics at UNC)
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