March 5, 2012, SURF Utrecht
To date in addition to protein identification, quantification of abundances of proteins and peptides is common practice. In general there are stable isotope labeling, label-free and MSn approaches to obtain abundance levels of proteins using mass spectrometry. Each technique has its pro’s and con’s with differences in applicability and computational approaches. In the HotTopics Proteomics meeting an overview of these techniques will be shown, followed by the detailed presentation of the current state of the art of these three approaches. Finally the HotTopics Proteomics meeting will conclude by addressing the need for follow-up analysis using pathway or network discovery methods.
Keywords: proteomics, peptides, quantification, statistics, mass spectrometry
Programme March 5th
| 12:30 – 12:35 | Welcome – Marc van Driel |
| 12:35 – 13:05 | Lunch |
| 13:05 – 13:20 | Introduction: Overview of quantitative approaches |
| Bas van Breukelen, Utrecht University | |
| 13:20 – 14:10 | Label-free proteomics for biomarker discovery and validation |
| Connie Jimenez, VUmc | |
| 14:10 – 15:00 | Current challenges of label-free quantitative proteomics |
| Peter Horvatovich, University of Groningen | |
| 15:00 – 15:10 | Tea break |
| 15:10 – 16:00 | Quantitative Proteomics analysis in multiple dimensions: |
| Challenges in data processing and results visualisation | |
| Twan America, Wageningen University & Research Centre | |
| 16:00 – 16:50 | Methods for Statistical and Bioinformatics Analysis of |
| Quantified Mass Spectrometry Data | |
| Elizabeth McClellan, Erasmus Medical Centre | |
| 16:50 – 17:20 | General discussion |
| 17:20 – 17:30 | Closing |
Location
Universiteit Utrecht, HR Kruyt Building, De Uithof, Padualaan 8, 3584 CH Utrecht, 6th floor, room O622 (lunch: Z612). Route description: http://www.uu.nl/NL/contactenroutes/routesenplattegronden/Pages/default.aspx
About HotTopics
NBIC HotTopics are a new series of NBIC meetings committed to bringing scientists together to discuss the concepts and methods on a hot topic in their research field. It should provide a platform to keep in touch with peers in the field and foster sharing of new insights, applications and collaborations. Therefore, the aim of the meeting is not to present the latest results of your own work, but rather to identify new trends and breakthroughs in the field in general.
Four scientists will give a 20 minute lecture followed by 40 minutes of discussion on the important computational concepts:
- What does a method try to accomplish?
- What assumptions were made?
- How does this method compare to similar ones?
- What are the strengths, weaknesses and pitfalls?
- Can we apply it in other areas?
- What are the limitations and challenges for new applications and developments?
Flip over, beamer and laptop are available.
Organising committee
- Dr. ir. Bas van Breukelen – Proteomics Group, Utrecht University
- Dr. Marc van Driel – Netherlands Bioinformatics Centre (NBIC)