2018 City of Hope UCSC Genome Browser Workshop - Computer Hands-on Training Part II

Venue:

2018 City of Hope UCSC Genome Browser Workshop - Computer Hands-on Training Part II

Los Angeles,  

Time:

From  2018-12-07 17:00:00  to  2018-12-08 00:00:00
Event Description
UCSC Genome Browser Workshop - Computer Hands-on Training Part II Course Description: The UCSC Genome Browser (http://genome.ucsc.edu/) is a powerful tool for interacting with genome assemblies for human and many other organisms. This workshop will introduce you to the wealth of data contained in the browser and related databases, and will allow you to integrate and compare results of your genomic and transcriptomic experiments with highlights of new releases & features. Date & Time:        Computer Hands-on Workshop: Friday, December 7, 2018 - 9:00 am to 4:00 pm Location:        Conference Room B, City of Hope Medical Center, 1500 E. Duarte Road, Duarte, CA 91010 Instructor Biography Robert Kuhn received his PhD at the University of California, Santa Barbara in Biochemistry and Molecular Biology, where he studied the centromeres of yeast. Following a postdoctoral at UC Berkeley/USDA Plant Gene Expression Center, he taught biochemistry, molecular biology and genetics at UC Santa Cruz. He joined the UCSC Genome Browser project in 2003, where he is now Associate Director at University of California Santa Cruz Genomics Institute. The Genome Browser is a widely used visualization tool giving access to the genomes of human and nearly a hundred other animals. Dr. Kuhn's responsibilities include enabling researchers through teaching the Genome Browser in workshops and seminars and learning from them how to improve the Browser, including identification and integration of useful new datasets. Email: kuhn@soe.ucsc.edu Website: http://genome.ucsc.edu Agenda:     9:00 am-10:30 am     Getting more out of the Browser          * Multi-Region mode          * Exon-only display          * Viewing regions of your own choice, including discontinuous (e.g., pathways)          * Alternate haplotypes in human genome assemblies          * Public sessions - sharing your data with everyone          * Table Browser advanced examples:          * Intersection          * Filtering          * Finding the table that goes with your track          * Track Hubs          * How to make your own track hub          * Assembly Hubs          * Make a track hub for your genome of interest 10-30 am- 10:45 am Coffee break 10:45 am- 12:00 pm     Browsing variant data and sensitive data            * Understanding various SNP tracks            * The Variant Annotation Integrator: predicting biochemical consequences of short variants            * Genome Browser in a Box: Hosting a local copy of the Genome Browser on your laptop            * GBiB as Browser inside your firewall           * Using GBiB and Assembly hubs to explore sensitive data 12:00 pm- 1:00 pm Lunch Break 1:00 pm- 4:00 pm     Cementing your knowledge: Advanced problem session to work on example problems     One-on-one consultation/troubleshooting     Using the Browser in teaching genetics and molecular biology