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Tue 4 Apr 2017
12:30 - 17:00

Venue: Room 215, Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE

Provided by: Bioinformatics


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CRUK: Introduction to visualising Next Generation Sequencing data with IGV

Tue 4 Apr 2017

Description

Modern genomics technologies are able to produce large volumes of data that often leave researchers feeling overwhelmed and unsure of how to begin the process of biological interpretation.

In this course, we explain the common file formats generated by sequencing technologies and how they can be manipulated and explored by non-bioinformaticians. The tool that we will use is the Integrative Genomics Viewer (IGV).

If time allows, there will be time at the end of the session for you to explore your own datasets with the assistance of the instructors.

This event is part of a series of training courses organized in collaboration with Dr. Mark Dunning at CRUK Cambridge Institute. The materials for the course were developed in collaboration with Dr. Thomas Carroll from the MRC CSC.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book by linking here.

Target audience
  • Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
  • Please be aware that these courses are only free for University of Cambridge students. All other participants will be charged a registration fee in some form. Registration fees and further details regarding the charging policy are available here
  • Further details regarding eligibility criteria are available here
Sessions

Number of sessions: 1

# Date Time Venue Trainers
1 Tue 4 Apr 2017   12:30 - 17:00 12:30 - 17:00 Room 215, Cancer Research UK Cambridge Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE map Dr Shamith Samarajiwa,  Dr Dora Bihary,  Mark Dunning
Topics covered

Bioinformatics, Data handling, Data mining, Data visualisation, Genomics

Objectives

After this course you should be able to:

  • Recognise and describe the contents of common file formats used for NGS data
  • Use IGV to explore your own sequencing data
  • Navigate to, and explore, regions of interest in a reference genome
  • Perform quality assessment of your NGS data
Aims

During this course you will learn about:

  • Common File formats used to store NGS data
  • How to download and run IGV
  • Navigating the IGV interface and moving around genomes
  • Exploring RNA-seq and ChIP-seq data in IGV
  • Importing and interpreting Variant calls using IGV
Format

Presentation and demonstrations

Registration fees
  • Free for University of Cambridge students
  • £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
  • It remains the participant's responsibility to acquire prior approval from the relevant group leader, line manager or budget holder to attend the course. It is requested that people booking only do so with the agreement of the relevant party as costs will be charged back to your Lab Head or Group Supervisor.
  • £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
  • £ 100/day for all Industry participants. These charges must be paid at registration
  • Further details regarding the charging policy are available here
Duration

0.5

Frequency

Once a year

Theme
Databases and Services

Booking / availability