ABRF 2017 Workshop
(SW1) The Galaxy platform for metaproteomic characterization of microbiomes
Saturday, March 25, 2017 (8:00 am - 12 noon; lunch from 12 noon - 1:00 pm)
Instructors: Tim Griffin, Pratik Jagtap, and James Johnson
- Accessing Galaxy instance on Globus for the SW1 Workshop: http://z.umn.edu/howtoaccessglobus
- SW1 Workshop presentation slides: http://z.umn.edu/sw1presentation
- SW1 Workshop documentation: http://z.umn.edu/sw1documentation
Not just for genomics anymore: Galaxy for proteomics and multi-omics
Did you think that Galaxy is just for genomic data analysis? Not anymore. Come to this workshop to learn how Galaxy can be used for proteomic data analysis, and also applications that cross the ‘omic domains.
With a focus on metaproteomics for characterizing microbiomes, we will help participants learn how to utilize tools for mass spectrometry-based proteomics in Galaxy. Metaproteomics is a multi-omic approach, which characterizes proteins expressed by microorganism communities (microbiomes). Participants will also learn how to leverage metagenomics data to generate protein sequence databases used for proteomic analysis, and utilize the protein information to gain better functional understanding of microbiomes. In addition to receiving hands-on instruction on the use of the Galaxy platform and its implementation, participants will gain experience with the latest software tools and workflows for proteomic and metaproteomic data analysis developed via worldwide collaborative efforts.
Target Audience: Core directors, personnel, data scientists and researchers interested in proteomics, multi-omics and microbiome research. Previous experience with Galaxy or other informatics solutions is not necessary.
- Recent Galaxy-P Publications: z.umn.edu/galaxypreferences
Saturday, March 25, 2017 (8:00 am - 12 noon; lunch is included from 12 noon - 1:00 pm)
Introduction to Microbiomes and metaproteomic analysis (Pratik Jagtap)
Basics of Data Analysis and Database Search using Galaxy platform. (Tim Griffin)
Metaproteomic analysis – Exploring taxonomy of the microbiome (James Johnson)
Metaproteomic analysis - Exploring function of the microbiome (Pratik Jagtap)
Summary and Conclusion. (Tim Griffin, Pratik Jagtap, and James Johnson)
- Introduce the Galaxy framework as a solution for data analysis across ‘omics’ domains
- Provide hands-on experience to attendees in using Galaxy
- Demonstrate use of Galaxy for a proteogenomic analysis (RNA-seq and proteomic integrative analysis)
- Lay the foundation for attendees to implement Galaxy at their own facility or institution to meet ‘omics’ data