European Network Linking Informatics and Genomics of Helper T cells in Tissues

Project Information

ENLIGHT-TENplus

Grant agreement ID: 955321

DOI

10.3030/955321

Project closed

EC signature date 19 August 2020

Start date 1 March 2021

End date 28 February 2025

Funded under

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Total cost

€ 4 067 526,24

EU contribution

€ 4 067 526,24

Coordinated by

HELMHOLTZ-ZENTRUM FUR INFEKTIONSFORSCHUNG GMBH
Germany

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

Other (13)

Vacancy widely advertised (incl. Euraxess, Naturejobs)

Vacancy of ESR positions widely advertised; detailed information on ESR projects provided via website

3rd Network Meeting

Organisation and implementation of 3rd Network Meeting including specific training events

1st Summer School Key concepts and innovative methods in immunology

Organisation and implementation of a Summer School on the understanding and communication of key concepts and innovative methods in immunology

Symposium How -omics & artificial intelligence advance T cell immunology

"Organisation and implementation of a 2-day International Symposium on the topic ""How -omics and artificial intelligence can advance T cell immunology""; ESR will take the lead"

Researcher Declaration (submitted within 20 days after recruitment)

Researcher Declaration submitted within 20 days after recruitment for each ESR

4th Summer School What to do with a PhD?

"Organisation and implementation of a Summer School on the topic ""What to do with a PhD – a hands-on workshop for job hunters"""

Art exhibition

Organisation and implementation of an art exhibition by internationally renowned artists in parallel with the International Symposium

2nd Summer School Bioinformatics and machine-learning for immunologists

Organisation and implementation of a Summer School on data resources and machine-learning tools for T cell immunologists

Awarding of PhD degrees

Awarding of PhD degrees to ESRs documented

2nd Network Meeting

Organisation and implementation of 2nd Network Meeting including specific training events

3rd Summer School Translational research and medicine development

Organisation and implementation of a Summer School on translational research and medicine development

1st Network Meeting

Organisation and implementation of 1st Network Meeting including specific training events

PCDP created (and yearly updates by the Training Committee to the SB)

PCDPs jointly drafted by the ESR and the responsible supervisor, updated and reviewed by the co-supervisor and the Training Committee, and submitted yearly to SBDue dates: months 12, 24 and 36

Documents, reports (3)

Dissemination & Exploitation Plan, annual updates

Establishment of Dissemination & Exploitation Plan, and annual updatesDue dates: months 6, 18, 30, and 42

Press release about ENLIGHT-TEN+ start

Press release about ENLIGHT-TEN+ start published

Communication Plan, biannual updates

Establishment of Communication Plan, and biannual updatesDue dates: months 6, 12, 18, 24, 30, 36, and 42

Publications

Peer reviewed articles (16)

Enhanced CD95 and interleukin 18 signalling accompany T cell receptor Vβ21.3+ activation in multi-inflammatory syndrome in children

Author(s): Zhenguang Zhang, Iain R. L. Kean, Lisa M. Dratva, John A. Clark, Eleni Syrimi, Naeem Khan, Esther Daubney, Deborah White, Lauran O’Neill, Catherine Chisholm, Caroline Payne, Sarah Benkenstein, Klaudia Kupiec, Rachel Galassini, Victoria Wright, Helen Winmill, Ceri Robbins, Katherine Brown, Padmanabhan Ramnarayan, Barnaby Scholefield, Mark Peters, Nigel Klein, Hugh Montgomery, Kerstin B. Meyer, Sa
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-48699-y

PIM kinases regulate early human Th17 cell differentiation

Author(s): Tanja Buchacher, Ankitha Shetty, Saara A. Koskela, Johannes Smolander, Riina Kaukonen, António G.G. Sousa, Sini Junttila, Asta Laiho, Olof Rundquist, Tapio Lönnberg, Alexander Marson, Omid Rasool, Laura L. Elo, Riitta Lahesmaa
Published in: Cell Reports, Issue 42, 2024, Page(s) 113469, ISSN 2211-1247
Publisher: Cell Press
DOI: 10.1016/j.celrep.2023.113469

Coralysis enables sensitive identification of imbalanced cell types and states in single-cell data via multi-level integration

Author(s): António G.G. Sousa, Johannes Smolander, Sini Junttila, Laura L. Elo
Published in: bioRxiv, 2025, ISSN 0000-0000
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.02.07.637023

Human SARS-CoV-2 challenge uncovers local and systemic response dynamics

Author(s): Rik G. H. Lindeboom, Kaylee B. Worlock, Lisa M. Dratva, Masahiro Yoshida, David Scobie, Helen R. Wagstaffe, Laura Richardson, Anna Wilbrey-Clark, Josephine L. Barnes, Lorenz Kretschmer, Krzysztof Polanski, Jessica Allen-Hyttinen, Puja Mehta, Dinithi Sumanaweera, Jacqueline M. Boccacino, Waradon Sungnak, Rasa Elmentaite, Ni Huang, Lira Mamanova, Rakesh Kapuge, Liam Bolt, Elena Prigmore, Ben Killing
Published in: Nature, 2024, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-024-07575-x

The dark side of Tregs during aging

Author(s): Martina Palatella Stephane M. Guillaume Michelle A. Linterman Jochen Huehn
Published in: Frontiers in Immunology, 2022, ISSN 1664-3224
Publisher: International Union of Immunological Societies
DOI: 10.3389/fimmu.2022.940705

A comprehensive genetic map of cytokine responses in Lyme borreliosis

Author(s): Javier Botey-Bataller, Hedwig D. Vrijmoeth, Jeanine Ursinus, Bart-Jan Kullberg, Cees C. van den Wijngaard, Hadewych ter Hofstede, Ahmed Alaswad, Manoj K. Gupta, Lennart M. Roesner, Jochen Huehn, Thomas Werfel, Thomas F. Schulz, Cheng-Jian Xu, Mihai G. Netea, Joppe W. Hovius, Leo A. B. Joosten, Yang Li
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-47505-z

Identification of single-cell blasts in pediatric acute myeloid leukemia using an autoencoder

Author(s): Alice Driessen, Susanne Unger, An-phi Nguyen, Rhonda E Ries, Soheil Meshinchi, Stefanie Kreutmair, Chiara Alberti, Pavel Sumazin, Richard Aplenc, Michele S Redell, Burkhard Becher, María Rodríguez Martínez
Published in: Life Science Alliance, Issue 7, 2024, Page(s) e202402674, ISSN 2575-1077
Publisher: Life Science Alliance LLC
DOI: 10.26508/lsa.202402674

A new method to measure cell metabolism of rare cells <i>in vivo</i> reveals a high oxidative phosphorylation dependence of lung T cells

Author(s): Aristeidis Roubanis, Morgane Hilaire, Morgane Le Teuff, Odile Devergne, Tim Sparwasser, Luciana Berod, Benoît L Salomon
Published in: Immunology &amp; Cell Biology, 2025, ISSN 0818-9641
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/imcb.70018

Single cell characterization of blood and expanded regulatory T cells in autoimmune polyendocrine syndrome type 1

Author(s): Thea Sjøgren, Shahinul Islam, Igor Filippov, Adrianna Jebrzycka, André Sulen, Lars E. Breivik, Alexander Hellesen, Anders P. Jørgensen, Kari Lima, Liina Tserel, Kai Kisand, Pärt Peterson, Annamari Ranki, Eystein S. Husebye, Bergithe E. Oftedal, Anette S.B. Wolff
Published in: iScience, Issue 27, 2024, Page(s) 109610, ISSN 2589-0042
Publisher: Elsevier
DOI: 10.1016/j.isci.2024.109610

An integrated single-cell atlas of blood immune cells in aging

Author(s): Igor Filippov, Leif Schauser, Pärt Peterson
Published in: npj Aging, Issue 10, 2024, ISSN 2731-6068
Publisher: Nature Portfolio
DOI: 10.1038/s41514-024-00185-x

MMR vaccination induces trained immunity via functional and metabolic reprogramming of γδ T cells

Author(s): Rutger J. Röring, Priya A. Debisarun, Javier Botey-Bataller, Tsz Kin Suen, Özlem Bulut, Gizem Kilic, Valerie A.C.M. Koeken, Andrei Sarlea, Harsh Bahrar, Helga Dijkstra, Heidi Lemmers, Katharina L. Gössling, Nadine Rüchel, Philipp N. Ostermann, Lisa Müller, Heiner Schaal, Ortwin Adams, Arndt Borkhardt, Yavuz Ariyurek, Emile J. de Meijer, Susan L. Kloet, Jaap ten Oever, Katarzyna Placek, Yang L
Published in: Journal of Clinical Investigation, Issue 134, 2024, ISSN 1558-8238
Publisher: American Society for Clinical Investigation
DOI: 10.1172/jci170848

Cytotoxic CD8+ Temra cells show loss of chromatin accessibility at genes associated with T cell activation

Author(s): Lehte Türk, Igor Filippov, Christian Arnold, Judith Zaugg, Liina Tserel, Kai Kisand, Pärt Peterson
Published in: Frontiers in Immunology, Issue 15, 2024, ISSN 1664-3224
Publisher: Frontiers
DOI: 10.3389/fimmu.2024.1285798

Temporal multi-omics analysis of COVID-19 in end-stage kidney disease

Author(s): Emily Stephenson, Erin Macdonald-Dunlop, Lisa M. Dratva, Rik G.H. Lindeboom, Zewen Kelvin Tuong, Win Min Tun, Lorenz Kretschmer, Norzawani B. Buang, Stephane Ballereau, Mia Cabantaus, Ana Peñalver, Elena Prigmore, John R. Ferdinand, Benjamin J. Stewart, Jack Gisby, Talat H. Malik, Candice L. Clarke, Nicholas Medjeral-Thomas, Maria Prendecki, Stephen McAdoo, Anais Portet, Michelle Willicombe, Elea
Published in: Cell Genomics, Issue 5, 2025, Page(s) 100918, ISSN 2666-979X
Publisher: Elsevier BV
DOI: 10.1016/j.xgen.2025.100918

Systemic dysregulation and molecular insights into poor influenza vaccine response in the aging population

Author(s): Saumya Kumar, Martijn Zoodsma, Nhan Nguyen, Rodrigo Pedroso, Stephanie Trittel, Peggy Riese, Javier Botey-Bataller, Liang Zhou, Ahmed Alaswad, Haroon Arshad, Mihai G. Netea, Cheng-Jian Xu, Frank Pessler, Carlos A. Guzmán, Luis Graca, Yang Li
Published in: Science Advances, Issue 10, 2024, ISSN 2375-2548
Publisher: American Association for the Advancement of Science
DOI: 10.1126/sciadv.adq7006

Multi-modal generative modeling for joint analysis of single-cell T cell receptor and gene expression data

Author(s): Felix Drost, Yang An, Irene Bonafonte-Pardàs, Lisa M. Dratva, Rik G. H. Lindeboom, Muzlifah Haniffa, Sarah A. Teichmann, Fabian Theis, Mohammad Lotfollahi, Benjamin Schubert
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-49806-9

Comparative transcriptomic analyses of thymocytes using 10x Genomics and Parse scRNA-seq technologies

Author(s): Igor Filippov, Chinna Susan Philip, Leif Schauser, Pärt Peterson
Published in: BMC Genomics, Issue 25, 2024, ISSN 1471-2164
Publisher: BioMed Central
DOI: 10.1186/s12864-024-10976-x

Book chapters (1)

Inferring Tree-Shaped Single-Cell Trajectories with Totem

Author(s): António G. G. Sousa, Johannes Smolander, Sini Junttila, Laura L. Elo
Published in: Methods in Molecular Biology, Transcriptome Data Analysis, 2024, Page(s) 169-191
Publisher: Springer US
DOI: 10.1007/978-1-0716-3886-6_9

Non-peer reviewed articles (2)

Crafting an MSCA PhD Masterpiece: Guiding Students on the Verge of Discovery

Author(s): Lisa Dratva, Alice Driessen, Igor Filippov, Stéphane Guillaume, Lisa Hoenicke, Jean‐Christophe Lone
Published in: European Journal of Immunology, 2024, ISSN 0014-2980
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/eji.202451659

Temporal multi-omic analysis of COVID-19 in end-stage kidney disease

Author(s): Emily Stephenson, Erin Macdonald-Dunlop, Lisa M Dratva, Rik G.H. Lindeboom, Zewen Kelvin Tuong, Win Min Tun, Norzawani B Buang, Stephane Ballereau, Mia Cabantaus, Ana Peñalver, Elena Prigmore, John R Ferdinand, Benjamin J Stewart, Jack Gisby, Talat Malik, Candice L Clarke, Nicholas Medjeral-Thomas, Maria Prendecki, Stephen McAdoo, Anais Portet, Michelle Willicombe, Eleanor Sandhu, Matthew C. Pick
Published in: medRxiv, 2024, ISSN 0000-0000
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.06.20.24309228

Intellectual Property Rights

Patent (1)

METHOD OF IDENTIFYING T CELL RECEPTORS OF INTEREST

Application/Publication number: 20 24050499
Date: 2024-02-23
Applicant(s): GENOME RESEARCH LIMITED LBG