Introduction to Next Generation Sequencing

Overview

Instructor: Michael Dickens

Time: Tuesday, September 25, 10:00AM-12:30PM

Location: WCL 126

Prerequisites: None

This short course covers concepts of sequence mapping, variant calling and ChIP-seq analysis utilizing tools available on the Ada cluster.

Course Materials

Presentation slides

The presentation slides are available as downloadable PDF files.

  • Introduction to NGS (Fall 2018): PDF
  • Introduction to NGS (Spring 2018): PDF
  • Introduction to NGS (Fall 2017): PDF
  • Introduction to NGS (Spring 2017): PDF

Agenda

This course focuses, among others, on the following topics:

  • NGS Tools
  • NGS sequencing overview
  • FASTQ Quality Control
  • Aligning Sequences to a Reference Genome
  • Sequencing Error Correction
  • Sequence Alignment Visualization
  • Digital Normalization
  • Variant Calling (SNPs, indels)
  • Variant Annotation
  • ChIP-seq overview

Note: During the class sessions many aspects of the material will be illustrated live via a login to Ada. Attendees are welcome to follow these parts with their own laptops. They will need to configure their laptops to use the TAMULink wireless network. Relevant details on this can be found at: http://tamulink.tamu.edu/

You are encouraged to contact the HPRC helpdesk with any questions regarding Ada.