Newly updated Quick Reference Card

Video Tip of the Week: UCSC Genome Browser in the Cloud (GBIC)

Newly updated Quick Reference CardFor all the years we’ve been out doing training on the UCSC Genome Browser tools, we could watch the evolution of the needs of the researchers and the corresponding features of the UCSC Genome Browser site. At first, people just needed access to the public data. But then they needed ways to add their own data to the public data context and share the views. UCSC gave us custom tracks, and they gave us browser sessions. Woot!

Increasingly, the data sets got bigger and more complex and custom tracks couldn’t handle the volume. UCSC delivered track hubs. Woot!

Some people were telling us that they had patient data that they couldn’t load on to the UCSC site because of privacy and legal issues. Then UCSC delivered GBIB–Genome Browser in a Box. You could download a local copy of the browser and use your own data behind your firewall.

All of these strategies continue to help users combine their own data with the public data and visualize what they want to show. But there’s also another way now–GBIC, Genome Browser in the Cloud. This week’s tip shows you the video the team created to help people to understand what the GBIC can do. There’s additional information about the features that you can see on their announcement, via the mailing list. But just quickly, here’s the nutgraf:

Until now, genomics research groups working with sensitive medical data were largely limited to using local Genome Browser installations to maintain confidentiality, complicating data-sharing among collaborators. Today, the Genome Browser group of the UC Santa Cruz Genomics Institute announced they have changed that by launching a new product, Genome Browser in the Cloud (GBiC). GBiC introduces new freedom to collaborate by allowing rapid Browser installation, in a UNIX-based cloud or UNIX-virtualized cloud.

And here you can have a look at how it works.

In addition, we’ve recently updated our popular Quick Reference Cards, and we added the note that the GBIC can be used to help people work with their own data. You can download those cards, or get some printed ones, from our website. These cards have had to keep evolving over the years to keep up with all the important features that UCSC adds regularly.

Try out the GBIC with your own data. And they are always looking for feedback on how it suits your needs, or other things you might need. Help them evolve.

Disclosure: UCSC Genome Browser tutorials and materials are freely available because UCSC sponsors us to do training and outreach on the UCSC Genome Browser.

Reference:
Tyner C, Barber GP, Casper J, Clawson H, Diekhans M, Eisenhart C, Fischer CM, Gibson D, Navarro Gonzalez J, Guruvadoo L, Haeussler M, Heitner S, Hinrichs AS, Karolchik D, Lee BT, Lee CM, Nejad P, Raney BJ, Rosenbloom KR, Speir ML, Villarreal C, Vivian J, Zweig AS, Haussler D, Kuhn RM, and Kent WJ. The UCSC Genome Browser database: 2017 update. Nucleic Acids Res. 2016 Nov 29;. PMID: 27899642; PMC: PMC5210591.