Unraveling the dark matter of infectious diseases, environmental and genetic factors tipping the balance towards NCDs

Project Information

ID-DarkMatter-NCD

Grant agreement ID: 101136582

DOI

10.3030/101136582

EC signature date 11 December 2023

Start date 1 January 2024

End date 31 December 2028

Funded under

• Health

Total cost

€ 7 185 870,01

EU contribution

€ 7 185 361,00

Coordinated by

MEDIZINISCHE UNIVERSITAET WIEN
Austria

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Documents, reports (3)

Ethics framework

Ethics and Governance framework (HRequirement No. 1 [9], POPD- Requirement no 3 [6])

Genetic data

Report on data curation & exchange

D,E,C plan

Plan for dissemination, exploit, comm

Data Management Plan (1)

DMP

Data management plan

Websites, patent fillings, videos etc. (1)

Public website

Public website of ID-DarkMatter-NCD

Publications

Peer reviewed articles (25)

Antigen-specific activation of gut immune cells drives autoimmune neuroinflammation

Author(s): Lena K. Siewert, Kristina Berve, Elisabeth Pössnecker, Julia Dyckow, Amel Zulji, Ryan Baumann, Aida Munoz-Blazquez, Gurumoorthy Krishnamoorthy, David Schreiner, Sharon Sagan, Charlotte Nelson, Joseph J. Sabatino, Kazuki Nagashima, Médéric Diard, Andrew J. Macpherson, Stephanie C. Ganal-Vonarburg, Michael A. Fischbach, Scott S. Zamvil, Lucas Schirmer, Sergio E. Baranzini, Anne-Katrin Pröbstel
Published in: Gut Microbes, Issue 18, 2026, ISSN 1949-0976
Publisher: Informa UK Limited
DOI: 10.1080/19490976.2025.2601430

A journey to your self: The vague definition of immune self and its practical implications

Author(s): Koncz, Balázs; Balogh, Gergő Mihály; Manczinger, Máté
Published in: Proceedings of the National Academy of Sciences, 2024, ISSN 1091-6490
Publisher: National Academy of Sciences.
DOI: 10.1073/PNAS.2309674121

Molecular Systems Biology

Author(s): Szilvia Juhász; Benjamin Tamás Papp; Anna Tácia Fülöp; Zoltán Farkas; Dávid Kókai; Dóra Alexandra Gyémánt; Franciska Tóth; Zsófia Nacsa; Dóra Spekhardt; Balázs Koncz; Péter Burkovics; Csaba Pál; Máté Manczinger
Published in: Molecular Systems Biology, 2026, ISSN 1744-4292
Publisher: Nature Publishing Group
DOI: 10.1038/S44320-026-00193-X

Systemic antibody responses against bacterial and viral antigens associate with fatigue in patients with inflammatory bowel disease

Author(s): Maximilian G Griesbaum, Thomas Vogl, Marijn C Visschedijk, Eleonora A M Festen, Gerard Dijkstra, Adina Weinberger, Eran Segal, Rinse K Weersma, Arno R Bourgonje
Published in: iScience, 2026, ISSN 2589-0042
Publisher: Cell Press, an imprint of Elsevier
DOI: 10.1016/j.isci.2026.116828

Associations between HLA-II variation and antibody specificity are predicted by antigen properties

Author(s): Innocenti G.; Andreu-Sánchez S.; Hörstke N.V.; Elabd H.; Barozzi I.; Franke A.; Manczinger M.; Vogl T.
Published in: Genome Medicine, 2025, ISSN 1756-994X
Publisher: BioMed Central
DOI: 10.1186/S13073-025-01486-W

Mapping adaptive immune responses toward fungal antigens in inflammatory bowel disease using T cell repertoire sequencing and phage-immunoprecipitation sequencing

Author(s): Mahdy AKH, ElAbd H, Prinzensteiner M, Jebens H, Sivickis K, Bacher P, Vogl T, Franke A, et al
Published in: Journal of Crohn's and Colitis, 2026, ISSN 1876-4479
Publisher: Oxford Academic
DOI: 10.1093/ECCO-JCC/JJAG015

Free Radical Biology and Medicine

Author(s): Sem Geertsema; Hannah J. Holstein; Marian L.C. Bulthuis; Sofie de Jong; Marjan Reinders-Luinge; Karin Koerts-Steijn; Anneke C. Muller Kobold; Klaas Nico Faber; Harry van Goor; Gerard Dijkstra; Arno R. Bourgonje
Published in: Free Radical Biology and Medicine, 2026, ISSN 0891-5849
Publisher: Elsevier BV
DOI: 10.1016/J.FREERADBIOMED.2025.11.057

Anti-CD20 B cell depletion is associated with elevated mucosal-originating circulating regulatory IgA B cells in multiple sclerosis

Author(s): Tradite Neziraj, Elisabeth Pössnecker, Angela A. Wang, Paul Saary, Adrian-Minh Schumacher, Florian Ingelfinger, Amandine Mathias, Edoardo Galli, Marco Häfelfinger, Michelle Zuo, Samuel Jones, Vasiliki Pantazou, Joep Killestein, Sabine Schädelin, Pascal Benkert, Cristina Granziera, Caroline Pot, Antje Bischof, Jan Hendrik Niess, Magdalena Filipowicz Sinnreich, Tobias Derfuss, Charlotte E. Teunissen, Jens Kuhle, David A. Hafler, Renaud Du Pasquier, Yoshiaki Yasumizu, Jennifer L. Gommerman, Anne-Katrin Pröbstel
Published in: Science Translational Medicine, Issue 18, 2026, ISSN 1946-6234
Publisher: American Association for the Advancement of Science (AAAS)
DOI: 10.1126/SCITRANSLMED.AEE1580

Deciphering the prodrome of inflammatory bowel disease up to 10 years before disease onset by massively parallel serology

Author(s): Arno R Bourgonje, Gabriel Innocenti, Alexandra E Livanos, Melanie Prinzensteiner, Jared S Magee, Mark S Riddle, Renee M Laird, Thierry Dervieux, Chad K Porter, Sacha Gnjatic, Francesca Petralia, Joana Torres, Mayte Suárez-Fariñas, Thomas Vogl, Jean-Frederic Colombel, Saurabh Mehandru
Published in: Gut, 2026, ISSN 0017-5749
Publisher: BMJ
DOI: 10.1136/GUTJNL-2025-337762

Nature Communications

Author(s): Manczinger, Innocenti, Vogl, Zhernakova, Weersma, Et Al.
Published in: Nature Communications 2026, 2026, ISSN 2041-1723
Publisher: Springer Nature
DOI: 10.1038/s41467-019-14177-z

Molecular mimicry in the pathogenesis of autoimmune rheumatic diseases

Author(s): Michaela Fehringer; Thomas Vogl
Published in: Journal of Translational Autoimmunity, 2025, ISSN 2589-9090
Publisher: Elsevier
DOI: 10.1016/J.JTAUTO.2025.100269

Patient-Derived Monoclonal Myelin Oligodendrocyte Glycoprotein Autoantibodies Mediate Cytotoxicity

Author(s): Nora Sandrine Wetzel, Laila Kulsvehagen, Anne-Catherine Lecourt, Beata Filipek, Patrick Lipps, Laura Rieder, Kristina Berve, Gurumoorthy Krishnamoorthy, Bert A. 't Hart, Lucas Schirmer, Soumya S. Yandamuri, Kevin C. O'Connor, Anne-Katrin Pröbstel
Published in: Neurology Neuroimmunology & Neuroinflammation, Issue 13, 2025, ISSN 2332-7812
Publisher: Ovid Technologies (Wolters Kluwer Health)
DOI: 10.1212/NXI.0000000000200520

Myelin antigen capture in the CNS by B cells expressing EBV latent membrane protein 1 leads to demyelinating lesion formation

Author(s): Kim, Schneider, Raach, Karypidis, Roux, Perdikaris, Holdermann, Pröbstel, et al.
Published in: Cell, ISSN 1097-4172
Publisher: Cell Press, an imprint of Elsevier
DOI: 10.1016/j.cell.2025.12.031

Nature Communications

Author(s): Rakoff-Nahoum, Seth; Debelius, Justine; Valles-Colomer, Mireia; Noordzij, Hanna Theodora; Esteban-Torres, Maria; Zhernakova, Alexandra; Brusselaers, Nele; Pettersen, Veronika Kuchařová
Published in: Nature Communications, 2025, ISSN 2041-1723
Publisher: Nature Publishing Group (Springer Nature)
DOI: 10.1038/S41467-025-61998-2

A reconceptualized framework for human microbiome transmission in early life

Author(s): Seth Rakoff-Nahoum, Justine Debelius, Mireia Valles-Colomer, Hanna Theodora Noordzij, Maria Esteban-Torres, Alexandra Zhernakova, Nele Brusselaers, Veronika Kuchařová Pettersen
Published in: Nature Communications, Issue 16, 2025, ISSN 2041-1723
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/S41467-025-61998-2

Elevated serum glutathione reflects endoscopic disease activity in inflammatory bowel disease

Author(s): Sem Geertsema, Hannah J. Holstein, Marian L.C. Bulthuis, Sofie de Jong, Marjan Reinders-Luinge, Karin Koerts-Steijn, Anneke C. Muller Kobold, Klaas Nico Faber, Harry van Goor, Gerard Dijkstra, Arno R. Bourgonje
Published in: Free Radical Biology and Medicine, Issue 243, 2026, ISSN 0891-5849
Publisher: Elsevier BV
DOI: 10.1016/J.FREERADBIOMED.2025.11.057

Modulator of VRAC Current 1 Is a Potential Target Antigen in Multiple Sclerosis

Author(s): Johannes Raffael Dahl; Alicia Weier; Christopher Winter; Maik Hintze; Veit Rothhammer; Thanos Tsaktanis; Anne-Katrin Proebstel; Tradite Neziraj; Elisabeth Poessnecker; Johanna Oechtering; Jens Kuhle; Boris-Alexander Kallmann; Gabriele Luber; Thorsten Heider; Luisa Klotz; Rittika Chunder; Stefanie Kuerten
Published in: Neurology: Neuroimmunology & Neuroinflammation, 2025, ISSN 2332-7812
Publisher: Ovid Technologies (Wolters Kluwer Health) — published on behalf of the American Academy of Neurology
DOI: 10.1212/NXI.0000000000200374

Genome Medicine

Author(s): Innocenti, Gabriel; Andreu-Sánchez, Sergio; Hörstke, Nicolai V.; Elabd, Hesham; Barozzi, Iros; Franke, Andre; Manczinger, Máté; Vogl, Thomas
Published in: Genome Medicine, 2025, ISSN 1756-994X
Publisher: BMC
DOI: 10.1186/S13073-025-01486-W

Digestive Diseases and Sciences

Author(s): Bourgonje, Arno R.; Posner, Hannah; Carbonnel, Franck; Colombel, Jean-Frédéric; Kayal, Maia
Published in: Digestive Diseases and Sciences, 2025, ISSN 0163-2116
Publisher: Springer Science and Business Media LLC (Springer)
DOI: 10.1007/S10620-024-08809-8

Immune signatures link myelin oligodendrocyte glycoprotein antibody–associated disease to other autoantibody-mediated conditions

Author(s): Jonas Schmid, Chiara Alberti, Laura Power, Nicolás G. Nuñez, Donatella De Feo, Sofia Tyystjärvi, Laila Kulsvehagen, Victor Kreiner, Ana Beatriz Ayroza Bleher, Patrick Lipps, Stijn Swinnen, Florian Ingelfinger, Can Ulutekin, Camille Chaubet, Susanne Unger, Stefanie Kreutmair, Romain Marignier, Thomas Korn, Anne-Katrin Pröbstel, Roland Liblau, Burkhard Becher
Published in: Science Translational Medicine, Issue 17, 2025, ISSN 1946-6234
Publisher: American Association for the Advancement of Science (AAAS)
DOI: 10.1126/SCITRANSLMED.ADW0358

Untargeted faecal metabolomics for the discovery of biomarkers and treatment targets for inflammatory bowel diseases

Author(s): Arnau Vich Vila, Jingwan Zhang, Moting Liu, Klaas Nico Faber, Rinse K Weersma
Published in: Gut, Issue 73, 2024, ISSN 0017-5749
Publisher: BMJ
DOI: 10.1136/GUTJNL-2023-329969

Systemic antibody responses against gut microbiota flagellins implicate shared and divergent immune reactivity in Crohn’s disease and chronic fatigue syndrome

Author(s): Bourgonje, Arno R.; Hörstke, Nicolai V.; Fehringer, Michaela; Innocenti, Gabriel; Vogl, Thomas
Published in: Microbiome, 2024, ISSN 2049-2618
Publisher: BioMed Central
DOI: 10.1186/S40168-024-01858-1

Gut

Author(s): Arnau Vich Vila; Jingwan Zhang; Moting Liu; Klaas Nico Faber; Rinse K Weersma
Published in: Gut, 2024, ISSN 0017-5749
Publisher: BMJ
DOI: 10.1136/GUTJNL-2023-329969

Das Mikrobiom bei rheumatoider Arthritis und systemischem Lupus erythematodes

Author(s): Michaela Fehringer; Thomas Vogl
Published in: rheuma plus, 2025, ISSN 1868-260X
Publisher: Springer Verlag
DOI: 10.1007/S12688-025-00857-W

Five dominant amino acid substitution signatures shape tumour immunity

Author(s): Szilvia Juhász, Benjamin Tamás Papp, Anna Tácia Fülöp, Zoltán Farkas, Dávid Kókai, Dóra Alexandra Gyémánt, Franciska Tóth, Zsófia Nacsa, Dóra Spekhardt, Balázs Koncz, Péter Burkovics, Csaba Pál, Máté Manczinger
Published in: Molecular Systems Biology, Issue 22, 2026, ISSN 1744-4292
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/S44320-026-00193-X