CORDIS
EU research results

CORDIS

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International Data Exchange and Data Representation Standards for Proteomics

Project information

Grant agreement ID: 260558

Status

Closed project

  • Start date

    1 January 2011

  • End date

    30 June 2014

Funded under:

FP7-HEALTH

  • Overall budget:

    € 2 201 655,20

  • EU contribution

    € 1 925 962

Coordinated by:

EUROPEAN MOLECULAR BIOLOGY LABORATORY

Germany

Objective

Over the last few years the field of proteomics has evolved into a prolific data producer. As a result, various databases that collect and redistribute the acquired data have been established. While data format standards for quantitative proteomics have now been defined and implemented with significant contribution from the recently completed EU ProDaC grant, standards for quantitative proteomics are still lacking.
This simultaneous creation of multiple repositories and databases, and lack of standards for quantitative proteomics result in a fragmentation of data, and cause confusion for data submitters and users alike.
Based on consortium expertise in the operation of large scale proteomics repositories (PRIDE, PeptideAtlas, Tranche, Peptidome) we aim to implement the next step, regular data exchange between major international proteomics resources. In parallel, we will further develop standards (mzQuantML) for the dynamic field of quantitative mass spectrometry.
The main objectives of ProteomExchange are user-oriented: (i) to provide a single point of data submission to the user; (ii) to ensure data availability in all of the different member databases; (iii) to use community standard formats to represent the data, so it becomes accessible to all regardless of data origin; (iv) to provide added value through different views on the same data, from repositories to derived search tools.
With an international consortium and support from large scale data producers (ISAS (Germany), U. Cambridge (UK), Karolinska Institute (Sweden)), industry (Pfizer, Philips, Waters), and journals (Nature Biotechnology, MCP, JPR), we here propose a Coordination Action project to solidify an emerging informal collaboration between major repositories into a production-quality data deposition and dissemination consortium on par with the systems so successfully employed by three-dimensional structure databases and nucleotide sequence databases, amongst others.

Coordinator

EUROPEAN MOLECULAR BIOLOGY LABORATORY

Address

Meyerhofstrasse 1
69117 Heidelberg

Germany

Activity type

Research Organisations

EU Contribution

€ 502 457

Administrative Contact

Tom Ratcliff (Mr.)

Participants (12)

THE UNIVERSITY OF LIVERPOOL

United Kingdom

EU Contribution

€ 204 028

VIB

Belgium

EU Contribution

€ 187 249

EIDGENOESSISCHE TECHNISCHE HOCHSCHULE ZUERICH

Switzerland

EU Contribution

€ 94 160

Institute for Systems Biology

United States

EU Contribution

€ 137 302

UNIVERSITY OF MICHIGAN THE REGENTS OF THE UNIVERSITY OF MICHIGAN

United States

EU Contribution

€ 68 377

INTEGROMICS SL ITG

Spain

EU Contribution

€ 186 728

RUHR-UNIVERSITAET BOCHUM

Germany

EU Contribution

€ 222 560

SIB INSTITUT SUISSE DE BIOINFORMATIQUE

Switzerland

EU Contribution

€ 143 629

GENEVA BIOINFORMATICS (GENEBIO) SA

Switzerland

EU Contribution

€ 67 559

WILEY-VCH VERLAG GMBH & CO KGAA

Germany

EU Contribution

€ 36 380

AGENCIA ESTATAL CONSEJO SUPERIOR DEINVESTIGACIONES CIENTIFICAS

Spain

EU Contribution

€ 60 000

SCIENTIFIC NETWORK MANAGEMENT SL

Spain

EU Contribution

€ 15 533

Project information

Grant agreement ID: 260558

Status

Closed project

  • Start date

    1 January 2011

  • End date

    30 June 2014

Funded under:

FP7-HEALTH

  • Overall budget:

    € 2 201 655,20

  • EU contribution

    € 1 925 962

Coordinated by:

EUROPEAN MOLECULAR BIOLOGY LABORATORY

Germany