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EPIC-XS SIGNED

European Proteomics Infrastructure Consortium providing Access

Total Cost €

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EC-Contrib. €

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Partnership

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Project "EPIC-XS" data sheet

The following table provides information about the project.

Coordinator
UNIVERSITEIT UTRECHT 

Organization address
address: HEIDELBERGLAAN 8
city: UTRECHT
postcode: 3584 CS
website: www.uu.nl

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Netherlands [NL]
 Total cost 9˙986˙185 €
 EC max contribution 9˙986˙185 € (100%)
 Programme 1. H2020-EU.1.4.1.2. (Integrating and opening existing national and regional  research infrastructures of European interest)
 Code Call H2020-INFRAIA-2018-1
 Funding Scheme RIA
 Starting year 2019
 Duration (year-month-day) from 2019-01-01   to  2022-12-31

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    UNIVERSITEIT UTRECHT NL (UTRECHT) coordinator 1˙745˙000.00
2    VIB VZW BE (ZWIJNAARDE - GENT) participant 1˙351˙127.00
3    KOBENHAVNS UNIVERSITET DK (KOBENHAVN) participant 1˙206˙963.00
4    EIDGENOESSISCHE TECHNISCHE HOCHSCHULE ZUERICH CH (ZUERICH) participant 1˙202˙916.00
5    TECHNISCHE UNIVERSITAET MUENCHEN DE (MUENCHEN) participant 524˙202.00
6    FUNDACIO CENTRE DE REGULACIO GENOMICA ES (BARCELONA) participant 523˙349.00
7    INSTITUT PASTEUR FR (PARIS CEDEX 15) participant 499˙282.00
8    ISTITUTO EUROPEO DI ONCOLOGIA SRL IT (MILANO) participant 488˙125.00
9    FUNDACION CENTRO NACIONAL DE INVESTIGACIONES ONCOLOGICAS CARLOS III ES (MADRID) participant 480˙782.00
10    MIKROBIOLOGICKY USTAV AV CR V.V.I CZ (PRAHA 4) participant 474˙125.00
11    KUNGLIGA TEKNISKA HOEGSKOLAN SE (STOCKHOLM) participant 473˙312.00
12    EUROPEAN MOLECULAR BIOLOGY LABORATORY DE (HEIDELBERG) participant 266˙750.00
13    EBERHARD KARLS UNIVERSITAET TUEBINGEN DE (TUEBINGEN) participant 209˙750.00
14    FORSCHUNGSINSTITUT FUR MOLEKULARE PATHOLOGIE GESELLSCHAFT MBH AT (WIEN) participant 208˙500.00
15    THE CHANCELLOR MASTERS AND SCHOLARSOF THE UNIVERSITY OF CAMBRIDGE UK (CAMBRIDGE) participant 120˙500.00
16    IDRYMA TECHNOLOGIAS KAI EREVNAS EL (IRAKLEIO) participant 70˙500.00
17    TARTU ULIKOOL EE (TARTU) participant 70˙500.00
18    UNIVERSITETET I BERGEN NO (BERGEN) participant 70˙500.00

Map

 Project objective

In life sciences research, proteomics technologies promise to be even more revolutionary than genomics for understanding the molecular mechanisms of complex biological systems and their (mal-)functions in health and disease. As a result, there is a strongly growing need for the integration of proteomic technologies into world-class life sciences research programs in medicine, agriculture, food, biotechnology, and materials.

The European Proteomics Infrastructure Consortium providing Access (EPIC-XS) brings together a consortium of world-leading, highly innovative European proteomics facilities with the shared goal of supporting excellent life sciences research in Europe. This will be achieved by providing access to cutting-edge proteomics facilities, and by developing and implementing novel mass spectrometry based proteomics and bioinformatics approaches to shape the future life sciences research in Europe.

The Transnational Access in EPIC-XS consists of around 2400 days of access to state-of-the-art proteomics facilities, corresponding to around 150 user projects, which will be evaluated by an independent review panel to ensure excellence, and to match users with the best facility for their challenging research questions.

The cutting-edge Joint Research Activities in EPIC-XS are built on the extremely strong innovation track record of the consortium members, and will address bottlenecks in, and develop novel approaches for, future-oriented efforts in computational and structural proteomics, analysis of higher-order proteome organization, multi-omics integration, and translational/clinical proteomics and personalized/precision medicine.

EPIC-XS will provide users with unrivalled access to world-leading facilities and expertise, while simultaneously extending Europe’s leading international role in the. EPIC-XS meets the widespread current demands for user access, addresses present bottlenecks in the field and will open up entirely new perspectives in proteomics.

 Publications

year authors and title journal last update
List of publications.
2020 Julianus Pfeuffer, Timo Sachsenberg, Tjeerd M. H. Dijkstra, Oliver Serang, Knut Reinert, Oliver Kohlbacher
EPIFANY: A Method for Efficient High-Confidence Protein Inference
published pages: , ISSN: 1535-3893, DOI: 10.1021/acs.jproteome.9b00566
Journal of Proteome Research 2020-03-05
2020 Oleg Klykov, Carmen van der Zwaan, Albert J. R. Heck, Alexander B. Meijer, Richard A. Scheltema
Missing regions within the molecular architecture of human fibrin clots structurally resolved by XL-MS and integrative structural modeling
published pages: 1976-1987, ISSN: 0027-8424, DOI: 10.1073/pnas.1911785117
Proceedings of the National Academy of Sciences 117/4 2020-03-05
2019 Roberta Noberini, Camilla Restellini, Evelyn Oliva Savoia, Tiziana Bonaldi
Enrichment of histones from patient samples for mass spectrometry-based analysis of post-translational modifications
published pages: , ISSN: 1046-2023, DOI: 10.1016/j.ymeth.2019.10.001
Methods 2020-03-05
2020 Saar A. M. Laarse, Charlotte A. G. H. Gelder, Marshall Bern, Michiel Akeroyd, Maurien M. A. Olsthoorn, Albert J. R. Heck
Targeting proline in (phospho)proteomics
published pages: , ISSN: 1742-464X, DOI: 10.1111/febs.15190
The FEBS Journal 2020-03-05
2019 Alicia Lundby, Giulia Franciosa, Kristina B. Emdal, Jan C. Refsgaard, Sebastian P. Gnosa, Dorte B. Bekker-Jensen, Anna Secher, Svetlana R. Maurya, Indranil Paul, Blanca L. Mendez, Christian D. Kelstrup, Chiara Francavilla, Marie Kveiborg, Guillermo Montoya, Lars J. Jensen, Jesper V. Olsen
Oncogenic Mutations Rewire Signaling Pathways by Switching Protein Recruitment to Phosphotyrosine Sites
published pages: 543-560.e26, ISSN: 0092-8674, DOI: 10.1016/j.cell.2019.09.008
Cell 179/2 2020-03-05
2019 Niels Hulstaert, Jim Shofstahl, Timo Sachsenberg, Mathias Walzer, Harald Barsnes, Lennart Martens, Yasset Perez-Riverol
ThermoRawFileParser: Modular, Scalable, and Cross-Platform RAW File Conversion
published pages: 537-542, ISSN: 1535-3893, DOI: 10.1021/acs.jproteome.9b00328
Journal of Proteome Research 19/1 2020-03-05
2020 Dorte B. Bekker-Jensen, Oliver M. Bernhardt, Alexander Hogrebe, Ana Martinez-Val, Lynn Verbeke, Tejas Gandhi, Christian D. Kelstrup, Lukas Reiter, Jesper V. Olsen
Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries
published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-020-14609-1
Nature Communications 11/1 2020-03-05
2020 Juan Antonio Vizcaíno, Peter Kubiniok, Kevin A. Kovalchik, Qing Ma, Jérôme D. Duquette, Ian Mongrain, Eric W. Deutsch, Bjoern Peters, Alessandro Sette, Isabelle Sirois, Etienne Caron
The Human Immunopeptidome Project: A Roadmap to Predict and Treat Immune Diseases
published pages: 31-49, ISSN: 1535-9476, DOI: 10.1074/mcp.r119.001743
Molecular & Cellular Proteomics 19/1 2020-03-05
2019 Ralf Gabriels, Lennart Martens, Sven Degroeve
Updated MS²PIP web server delivers fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques
published pages: W295-W299, ISSN: 0305-1048, DOI: 10.1093/nar/gkz299
Nucleic Acids Research 47/W1 2020-01-29
2019 Barbara Steigenberger, Roland J. Pieters, Albert J. R. Heck, Richard A. Scheltema
PhoX: An IMAC-Enrichable Cross-Linking Reagent
published pages: 1514-1522, ISSN: 2374-7943, DOI: 10.1021/acscentsci.9b00416
ACS Central Science 5/9 2020-01-29
2019 Jakub Zeman, Yuzuru Itoh, Zdeněk Kukačka, Michal Rosůlek, Daniel Kavan, Tomáš Kouba, Myrte E Jansen, Mahabub P Mohammad, Petr Novák, Leoš S Valášek
Binding of eIF3 in complex with eIF5 and eIF1 to the 40S ribosomal subunit is accompanied by dramatic structural changes
published pages: 8282-8300, ISSN: 0305-1048, DOI: 10.1093/nar/gkz570
Nucleic Acids Research 47/15 2020-01-29
2019 Erin K. Zess, Cassandra Jensen, Neftaly Cruz-Mireles, Juan Carlos De la Concepcion, Jan Sklenar, Madlen Stephani, Richard Imre, Elisabeth Roitinger, Richard Hughes, Khaoula Belhaj, Karl Mechtler, Frank L. H. Menke, Tolga Bozkurt, Mark J. Banfield, Sophien Kamoun, Abbas Maqbool, Yasin F. Dagdas
N-terminal β-strand underpins biochemical specialization of an ATG8 isoform
published pages: e3000373, ISSN: 1545-7885, DOI: 10.1371/journal.pbio.3000373
PLOS Biology 17/7 2020-01-29
2018 Clement M. Potel, Simone Lemeer, Albert J. R. Heck
Phosphopeptide Fragmentation and Site Localization by Mass Spectrometry: An Update
published pages: 126-141, ISSN: 0003-2700, DOI: 10.1021/acs.analchem.8b04746
Analytical Chemistry 91/1 2020-01-29
2019 Slavata, Chmelík, Kavan, Filandrová, Fiala, Rosůlek, Mrázek, Kukačka, Vališ, Man, Miller, McIntyre, Fabris, Novák
MS-Based Approaches Enable the Structural Characterization of Transcription Factor/DNA Response Element Complex
published pages: 535, ISSN: 2218-273X, DOI: 10.3390/biom9100535
Biomolecules 9/10 2020-01-29
2019 Yasset Perez-Riverol, Andrey Zorin, Gaurhari Dass, Manh-Tu Vu, Pan Xu, Mihai Glont, Juan Antonio Vizcaíno, Andrew F. Jarnuczak, Robert Petryszak, Peipei Ping, Henning Hermjakob
Quantifying the impact of public omics data
published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-019-11461-w
Nature Communications 10/1 2020-01-29
2019 Johann Holzmann, Antonio Z Politi, Kota Nagasaka, Merle Hantsche-Grininger, Nike Walther, Birgit Koch, Johannes Fuchs, Gerhard Dürnberger, Wen Tang, Rene Ladurner, Roman R Stocsits, Georg A Busslinger, Béla Novák, Karl Mechtler, Iain Finley Davidson, Jan Ellenberg, Jan-Michael Peters
Absolute quantification of cohesin, CTCF and their regulators in human cells
published pages: , ISSN: 2050-084X, DOI: 10.7554/elife.46269
eLife 8 2020-01-29
2019 Cristina Chiva, Olga Pastor, Lucía Trilla-Fuertes, Angelo Gámez-Pozo, Juan Ángel Fresno Vara, Eduard Sabidó
Isotopologue Multipoint Calibration for Proteomics Biomarker Quantification in Clinical Practice
published pages: 4934-4938, ISSN: 0003-2700, DOI: 10.1021/acs.analchem.8b05802
Analytical Chemistry 91/8 2020-01-29
2019 Sem Tamara, Max Hoek, Richard A. Scheltema, Aneika C. Leney, Albert J.R. Heck
A Colorful Pallet of B-Phycoerythrin Proteoforms Exposed by a Multimodal Mass Spectrometry Approach
published pages: 1302-1317, ISSN: 2451-9294, DOI: 10.1016/j.chempr.2019.03.006
Chem 5/5 2020-01-29
2019 Rosulek, Darebna, Pompach, Slavata, Novak
Proteases Immobilization for In Situ Time-Limited Proteolysis on MALDI Chips
published pages: 833, ISSN: 2073-4344, DOI: 10.3390/catal9100833
Catalysts 9/10 2020-01-29
2019 Rosulek, Darebna, Pompach, Slavata, Novak
Proteases Immobilization for In Situ Time-Limited Proteolysis on MALDI Chips
published pages: 833, ISSN: 2073-4344, DOI: 10.3390/catal9100833
Catalysts 9/10 2020-01-29
2018 Sebastiaan C. de Graaf, Oleg Klykov, Henk van den Toorn, Richard A. Scheltema
Cross-ID: Analysis and Visualization of Complex XL–MS-Driven Protein Interaction Networks
published pages: 642-651, ISSN: 1535-3893, DOI: 10.1021/acs.jproteome.8b00725
Journal of Proteome Research 18/2 2019-09-04

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