RNA-Seq Blog Transcriptome Research & Industry News
| Date: Monday, September 27, 2021
Time: 2:00 PM – 3:00 PM (EDT) Location: Web Conference (See WebEx information below) Speakers: Bill Wysocki, Ph.D, Director of User Services, University of Chicago Dr. Zhenyu Zhang, Ph.D, GDC Co-Principal Investigator, University of Chicago |
Intended Audience
This webinar is intended for cancer researchers and bioinformaticians who are interested in learning more about how the NCI Genomic Data Commons (GDC) supports single cell RNA-Seq data.
Abstract
Single-cell RNA-Seq (scRNA-Seq) is a valuable tool for studying tumor heterogeneity and also the microenvironment, which may be composed of a distinct cancer subclones along with immune and other cell types. The GDC supports the submission and harmonization of tumor scRNA-Seq data and makes the data available for download via the GDC Data Portal. This webinar will provide an in depth look at how scRNA-Seq data is processed at the GDC and made data available to the community.
Included Topics
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- Provide an overview of the GDC scRNA-Seq workflow and quality control (QC)
- 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 UMAP to:
- Visualize relationships between cells
- Discover cell marker profiles and/or gene expression patterns of tumor-related genes
