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Statistical methods for 3D imaging mass spectrometry in proteomics and metabolomics

Objective

Since biology is by and large a 3-dimensional phenomenon, 3D imaging has a significant impact on many challenges in life sciences. 3D matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) is an emerging label-free 3D imaging technology with high potential in proteomics and metabolomics. 3D MALDI-IMS is based on 2D MALDI-IMS, which in the last years has proven its value in metabolomics, glycomics, lipidomics, peptidomics, and proteomics. However, 3D MALDI-IMS cannot tap its full potential due to the lack of computational methods for processing large and complex 3D IMS data. Our main goal is to realise 3D label-free proteomics and metabolomics by providing new statistical methods for the reproducible collection of 3D MALDI-IMS data, and for un- and supervised statistical analysis and interpretation of this data. We will validate our methods in diabetes research, surgical metabolomics, and natural products research. To reach our global goal, we will develop methodologies for reproducible collection of 3D MALDI-IMS data, develop a statistical simulator of MALDI-IMS data and evaluation strategies for statistical methods, develop preprocessing, unsupervised, and supervised methods of statistical analysis of 3D MALDI-IMS data, evaluate the developed methods on simulated and real-life proteomics and metabolomics data, and implement them using efficient graphic processing unit (GPU) architecture. This project is of high importance for research-intensive SME partners, Denator and SagivTech, since it would create a new market segment for them. Expertise of partners in biomedicine and their strong connections to clinical partners ensure adoption of the new methods into clinical practice. The developed methods and protocols can be potentially used in any biomedical application where 3D MALDI-IMS is advantageous such as cancer and diabetes diagnostics, disease pathway elucidation, histopathology, and discovery of biomarkers or antibiotics.
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Coordinator

EUROPEAN MOLECULAR BIOLOGY LABORATORY

Address

Meyerhofstrasse 1
69117 Heidelberg

Germany

Activity type

Research Organisations

EU Contribution

€ 217 827

Administrative Contact

Jill Rowe (Ms.)

Participants (8)

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DENATOR AB

Sweden

EU Contribution

€ 194 925

IMPERIAL COLLEGE OF SCIENCE TECHNOLOGY AND MEDICINE

United Kingdom

EU Contribution

€ 322 714

THE REGENTS OF THE UNIVERSITY OF CALIFORNIA

United States

EU Contribution

€ 284 600

UNIVERSITE DE RENNES I

France

EU Contribution

€ 366 215

STEINBEIS INNOVATION GGMBH

Germany

EU Contribution

€ 312 308

SAGIV TECH LTD

Israel

EU Contribution

€ 449 000

EUROPEAN RESEARCH SERVICES GMBH

Germany

EU Contribution

€ 93 660

UNIVERSITAET BREMEN

Germany

EU Contribution

€ 555 629

Project information

Grant agreement ID: 305259

Status

Closed project

  • Start date

    1 November 2012

  • End date

    31 October 2015

Funded under:

FP7-HEALTH

  • Overall budget:

    € 3 527 119,27

  • EU contribution

    € 2 796 878

Coordinated by:

EUROPEAN MOLECULAR BIOLOGY LABORATORY

Germany