A HUPO2011 Satellite Workshop hosted by the Swiss Institute for Bioinformatics @ The University of Geneva
The Seattle Proteome Center (SPC) at the Institute for Systems Biology and the Swiss Institute for Bioinformatics (SIB) are pleased to offer a five-day intensive course in proteomic informatics. This course will be held one week prior to HUPO 2011 (Aug 29-Sep 2) at the University of Geneva and will focus on the use of powerful open-source software tools for the analysis, validation, storage and interpretation of data obtained from large-scale quantitative proteomics experiments and methods, and quantitative tandem mass spectrometry. Through daily lectures and hands-on tutorials, course participants will become proficient in the use of these tools, including the highly regarded statistical validation tools PeptideProphet, ProteinProphet, and other components of the Trans-Proteomic Pipeline (TPP).
| Time | Day 1 | Day 2 | Day 3 | Day 4 | Day 5 | |
| 9:00am | Introduction | Peptide Prophet | Protein Prophet | Xpress & ASAPRatio | QuickMod | |
| 9:30am | ||||||
| 10:00am | Sequence Database Searching | |||||
| 10:30am | ||||||
| 11:00am | ||||||
| 11:30am | ||||||
| 12:00pm | Libra | |||||
| 12:30pm | 1.5 hr. lunch | 1.5 hr. lunch | 1.5 hr. lunch | |||
| 1:00pm | 1 hr. lunch | 1 hr. lunch | ||||
| 1:30pm | ||||||
| 2:00pm | Data Formats | Peptide Prophet | PIPE2 | Peptide Atlas & SRMAtlas & targeted | Open BIS | |
| 2:30pm | Pep3D | |||||
| 3:00pm | GUI Intro | SpectraST | ||||
| 3:30pm | tutorials | InterProphet | ||||
| 4:00pm | ||||||
| 4:30pm | ||||||
| 5:00pm | Installation & support | QualScore | TTP on Amazon | ATAQS | ||
| 5:30pm | ||||||
| 6:00pm | clinic | clinic | ||||
Dates:
August 29 to September 2, 2011
Presenters include (so far):
Luis Mendoza (ISB)
David Shteynberg (ISB)
Henry Lam (U Hong Kong)
Joe Slagel (ISB)
Mi-Youn Brusniak (ISB)
Dave Campbell (ISB)
Markus Muller (SIB)
Bernd Rinn (CISD)
Eric Deutsch
Andreas Quandt (IMSB)
Lars Malmstroem (IMSB)
Venue:
The course will be delivered in a dedicated computer lab at the University of Geneva:
CMU building
room 2130, 2nd floor
1 rue Michel-Servet
CH-1211 GENEVE 4
