14 October 2020 - 10am - 1pm
online via Zoom
Workshops
Introduction to Genome Browsers – online
Overview
Presenter: Vicky Perreau This detailed, hands on tutorial on Genome Browsers will provide beginners with an introduction to both the UCSC Genome browser and IGV (Integrated Genome Viewer). Numerous different datatypes will be displayed in the UCSC browser including human RNAseq data from GTEX and mouse single cell RNAseq data from Tabula Muris. Different data types available will be used to illustrate how a wide variety of biological questions can be investigated in genome browsers using public and local data.Learning objectives
At the end of the workshop, you will be able to:- find models for genes and transcripts of interest and interpret differences in the gene models
- find disease associated variants in the human genome
- determine the tissue/cell type expression profiles of a gene of interest and identify transcript variants expressed in different cell types
- understand some basic files types used in Genome browsers and upload and view local BAM files in genome browsers
- create custom interactive views with multiple datatypes to share with colleagues.
Prerequisites and Requirements
The workshop is aimed at bench researchers with no coding/programming skills who wish to learn how to utilise online data and resources to refine their biological research questions and discovery. This is a hands-on workshop delivered via Zoom and attendees must use their own computers with the following software preinstalled:- web browser (Firefox or Chrome recommended)
- IGV (Integrated Genome Viewer) (free)
- a computer mouse is also handy for selecting screen elements during the workshop.
- obtain a login to UCSC Genome browser (free) prior to the workshop to save your own sessions.
- Zoom (Version 5.1 or higher)