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Bioinformatics Training and Education Program

Oxford Nanopore Technologies Long Read Sequencing Live Workshop - FREDERICK EVENT: Single Cell and Variant Analysis

Oxford Nanopore Technologies Long Read Sequencing Live Workshop - FREDERICK EVENT: Single Cell and Variant Analysis

 When: Apr. 16th, 2025 1:00 pm - 4:00 pm

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Learning Level: Any

To Know

Where:
ATRF Frederick, 8560 Progress Drive, Conference Room ATRF E-1108
Organizer:
NCI CCR Sequencing Core (ATRF, Frederick)
Presented By:
Rob Harbert (Oxford Nanopore Technologies)

About this Class

What to bring:  Laptop capable of connecting to internet via NIH wifi

For questions or to register, please contact Eric Troop (eric.troop@nanoporetech.com)

Are you looking to expand the reach of your sequencing to enable what long read technologies can provide?  Please join Oxford Nanopore bioinformatics specialists on a deep dive into getting the most from your long read sequencing data.  In conjunction with the Frederick National Lab for Cancer Research (FNLCR), we are offering an in-depth workshop focusing to give you the tools and know how to delve deeper and gain further insight to your biological systems.

Oxford Nanopore Technologies offers data analysis solutions in our EPI2ME software platform tailored to the analysis of long read DNA and RNA sequencing data  from ONT devices. The Single Cell focus will cover the details of analyzing single-cell RNA sequencing data using our EPI2ME pipeline wf-single-cell. This workflow provides access to industry standard tools for primary processing of single-cell data including deconvolution, quality control, gene and transcript identification, and data visualization.

The Human Variation focus will cover the details of analyzing human whole genome sequencing data using our EPI2ME pipeline wf-human-variation. This workflow provides users with tools to perform alignment and variant calling for single nucleotide, structural,  and copy number variants as well as clinically relevant short tandem repeats, and cytosine methylation.

For both, participants will learn about the EPI2ME software, pipeline details, and work with an ONT bioinformatics expert in a hands-on data analysis training exercise.

Agenda:
• 1:00-1:15 – Check in/Registration/Distribute materials
• 1:15-1:45 – Data analysis intro from ONT (MinKNOW/EPI2ME/other advanced tools)
• 1:45-2:15 – Introduction to Single Cell RNA-seq data analysis with ONT
• 2:15-2:45 – Hands on data analysis: wf-single-cell (EPI2ME app)
• 2:45-3:15 – Introduction to Human WGS data analysis with ONT
• 3:15-3:45 – Hands on data analysis: wf-human-variation (EPI2ME app)
• 3:45-4:00 – Closing and Q&A