Mass Spec in BioTech Workshop

Date: October 20-22, 2008.
Location: UMBC
Contact: Alexei Gapeev, Ph.D.; University of Maryland, Baltimore County Dept. of Chemistry and Biochemistry 1000 Hilltop Circle Baltimore, MD 21250 office (410)455-6251 fax (410)455-2608

UMBC mass spectrometry facility is hosting a workshop on mass spectrometry tools for proteomics. The workshop will be held October 20-22 at the main UMBC campus. It will center on the facility nanoLC-MS system. The participants will learn underlying theory of mass spectrometry, liquid chromatography and protein database searching approaches. Hands-on training on the instrument (ThermoFisher LTQ) operation will supplement theory.

Expected outcome: The main goal of the workshop is to provide enough knowledge and hands-on experience so that, upon completion, attendees are able to independently plan experiments, prepare adequate samples, use the instrument in a productive way, recognize problems, conduct database search and interpret experimental results.

Who should attend: Prospective users of the recently installed nano-LC-MS system. Those interested in learning the mass spectrometry based proteomics. The workshop agenda is below: Day 1. Morning (9:30-12 am) and afternoon (1:30-2:30 pm): Instrument operation demonstration. Lecture. Nano-LC front end operation. Introduction to mass spectrometry as applied to the instrument and the discipline of proteomics. Day 1. Afternoon (2:30-4:30 pm):Hands-on exercise: Setting LC protocol and simple MS run. Setting up the instrument and software options. Setting up and running sequences. Day 2. Morning (9:30-12 am): Lecture. Topics include: Ion formation in the ESI source. Ion transmission and detection basics. MS scan modes (full scan, MS/MS, data dependent) and their utilization in mass spectrometry experiments. Protein ID workflow. Day 2. Afternoon: Hands-on exercise. Setting up a data dependent run. Data analysis software: Using software to display data, make annotations, manipulate other display options (e.g. ranges, background subtraction), export to other applications. Day 3. Hands on exercise. Database searching using BioWorks (Sequest) to mine for proteomics information. This section will include the sequest process overview, topics on obtaining a database, creating a database subset, indexing a database to speed up a search, setting specific parameters, interpreting the search data. The participants will analyze data acquired in day 2 and correlate data quality with the methods used.