Genomic Data Commons Single Cell RNA-Seq Support

About this Class

The NCI Genomic Data Commons’ (GDC) September webinar will introduce cancer researchers and bioinformaticians to the GDC's single-cell RNA-Seq (scRNA-Seq) data workflow. Single cell sequencing is a powerful platform for studying tumor heterogeneity and the microenvironment. During the webinar, GDC’s Drs. Bill Wysocki and Zhenyu Zhang will:

• provide an overview of the GDC scRNA-Seq workflow and quality control.
• demonstrate download of scRNA-Seq data generated from GDC workflows.
• demonstrate (using Jupyter notebooks) how scRNA-Seq data can be analyzed using dimensionality reduction plots such as Uniform Manifold Approximation and Projection (UMAP) to:
  • visualize relationships between cells.
  • discover cell marker profiles and/or gene expression patterns of tumor-related genes.

As a data sharing platform within the NCI Cancer Research Data Commons (CRDC), the GDC supports user-submitted data, including scRNA-Seq data, that can be harmonized and made available to the research community. For additional information on how the GDC works with other components in the CRDC, visit datacommons.cancer.gov. Speakers:

• Bill Wysocki, Ph.D.

Dr. Wysocki is the director of User Services and Outreach for the GDC at the University of Chicago.

• Zhenyu Zhang, Ph.D.

Dr. Zhang is the co-principal investigator of the GDC at the University of Chicago.