IMSC 2014 workshops are organized from Monday to Wednesday, 17h15 – 19h15.

Access to the workshops is free of charge, no registration ir required.


Monday, 25.08.2014, 17h15:


1. Workshop “MS in the Cloud”

ROOM #5 / third floor

Organizer: Nathan Yates

Description: tba


2. Workshop “Statistics and software in mass spectrometry”

ROOM #6 / third floor

Organizers: Ruedi Aebersold and Olga Vitek

The confirmed presenters are:

  • Ruedi Aebersold, Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, and Faculty of Science, University of Zürich, Switzerland
  • Dario Amodei, Department of Radiology, Stanford University, USA
  • Olga Vitek, Department of Statistics and Department of Computer Science, Purdue University, USA

Description: Targeted proteomics based on Selected Reaction Monitoring (SRM), and more recently on Data-Independent Acquisition (DIA, or SWATH-MS), plays an important role in mass spectrometry-based biological and biomedical investigations. However, these workflows require new specialized computational and statistical tools for experimental planning and for analyzing the acquired spectra. Development of such tools is now an active area of research.

This workshop will highlight the most recent advances in signal processing, data analysis algorithms, and statistical methodology for targeted proteomics offered within the computational framework Skyline and its external tools. The presentations will include detailed examples with experimental datasets, and discuss potential future development efforts.

Brief schedule:

  • Ruedi Abersold: Introduction to targeted mass spectrometry, and its role in proteomic research.
  • Dario Amodei: New developments supporting SRM and DIA workflows in Skyline.
  • Olga Vitek: New developments in MSstats, a Skyline external tool for statistical analysis of quantitative proteomic experiments, supporting SRM and DIA workflows.

Language: English

Tuesday, 26.08.2014, 17h15:


3. Workshop “Quantitative Imaging Mass Spectrometry (Q-IMS)”

ROOM #5 / third floor

Organizer: Mitsutoshi Setou, Hamamatsu University School of Medicine

Description: Quantitative Imaging Mass Spectrometry (Q-IMS) refers to methods and techniques used for assigning values to the absolute local concentration of measured analytes, in addition to the mass imaging capabilities of IMS. The development of Q-IMS, which may be considered as an emerging tool, is essential for advancing practical applications of IMS.

The aim of this short course is to present briefly the progress of different Q-IMS approaches, with a focus on matrix assisted laser desorption/ionization (MALDI) IMS for biomedical/ pharmaceutical research.

The key topics to be discussed refer to various factors that affect the non-linear dependence between the local analyte concentration and the ionization efficiency, arising from the different ionization efficiencies of analytes, the strong influence of the environment in which ions have been created (such as heterogeneous tissue) on the ionization process and the non-linear ion collection efficiency of the instrument. Such factors are accounted for in Q-IMS by signal calibration using internal standards (IS), diluted series of IS and other methods. The validation of results using complementary techniques is necessary as a final step.

A short course will be taught using a tutorial presentation followed by moderated discussions.

Language: English


4. Author Workshop “How to Successfully Publish Scientific Articles?”

ROOM #6 / third floor

Organizer: Rob von Daalen

Description: This workshop is for early career scientists looking for assistance in identifying, preparing and submitting research articles to an academic journal. The workshop will provide advice on best practices, top tips, ethics, the review process and other important considerations.

Questions addressed at this workshop will include:

• What do I need to consider when preparing my article?

• How do I write an article for a specific journal?

• What happens after I submit my article to a scientific/medical journal?

• How does the peer-review process work?

• How do I choose a suitable journal?

• Which tools are available during the writing process?

Language: English


Wednesday, 27.08.2014, 17h15:


5. Workshop “Careers in Mass Spectrometry”

ROOM #5 / third floor

Chair: Tony Bristow (on behalf of the British Mass Spectrometry Society)

The confirmed presenters are:

  • Alexander Makarov – Thermo Fisher Scientific
  • Perdita Barran– University of Manchester
  • John Langley – University of Southampton
  • David Jones – VRS (Analytical Science Recruitment Specialists)

Description: For the mass spectrometrist, career pathways are very diverse. These can be in various industrial environments (both within and outside a scientific discipline), academia, with the instrument manufacturers and in many other areas of research. To illustrate the wide variety of career options, and debate the future requirements for the “expert” user, mass spectrometrists from diverse backgrounds will provide short presentations describing their career paths.

To complement these discussions, experts from the mass spectrometry recruitment sector will also be present to discuss the many options for mass spectrometry careers, the current market demand for mass spectrometry skills and more broadly analytical sciences. There will also be an opportunity to take part in discussions on the skills required to prepare a high quality article for a peer reviewed journal.

This has been a very popular and successful workshop at previous IMSC meetings and again promises to deliver high impact and thought provoking discussions at IMSC 2014. We look forward to seeing you there.

Language: English



6. Workshop “Towards Open Access Mass Spectral Libraries”

ROOM #6 / third floor

Organizers: Stephen E Stein and Enrico Davoli

Description: The widespread availability of the Internet together with the capabilities of modern mass spectrometer data systems hold the promise of enabling the global sharing of mass spectra. The hard work done by one individual to identify a compound could then be conveniently used by others. Spectra, whose identity is unknown, but possibly of practical importance, could be posted for examination and processing by others. These capabilities require the open availability of software tools and data resources for the collection, annotation and validation of these spectra. This Workshop will attempt to assess the current state of mass spectral data sharing with the goal of expanding this capability.

In the first part of the Workshop, individuals involved in providing openly available data and related analysis tools will present brief status reports along with current plans and ideas for the future. An open discussion to identify ways to expand MS data sharing will follow. In this discussion we hope to clearly identify current needs and define realistic paths for addressing them. The goal is to enable different programs to coordinate their work and better assist individuals struggling to identify compounds from fragmentation products of their ions. Ion generation and fragmentation methods are not restricted in any way nor are application areas, which include any area where the identity of a compound giving rise to a spectrum is sought, including metabolomics, forensics, environmental analysis, food science among others.

Language: English