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

Informazioni relative al progetto

ENLIGHT-TENplus

ID dell’accordo di sovvenzione: 955321

DOI

10.3030/955321

Progetto chiuso

Data della firma CE 19 Agosto 2020

Data di avvio 1 Marzo 2021

Data di completamento 28 Febbraio 2025

Finanziato da

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Costo totale

€ 4 067 526,24

Contributo UE

€ 4 067 526,24

Coordinato da

HELMHOLTZ-ZENTRUM FUR INFEKTIONSFORSCHUNG GMBH
Germany

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Risultati finali

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

Pubblicazioni

Peer reviewed articles (16)

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

Autori: 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
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-48699-y

PIM kinases regulate early human Th17 cell differentiation

Autori: 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
Pubblicato in: Cell Reports, Numero 42, 2024, Pagina/e 113469, ISSN 2211-1247
Editore: 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

Autori: António G.G. Sousa, Johannes Smolander, Sini Junttila, Laura L. Elo
Pubblicato in: bioRxiv, 2025, ISSN 0000-0000
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.02.07.637023

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

Autori: 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
Pubblicato in: Nature, 2024, ISSN 0028-0836
Editore: Nature Publishing Group
DOI: 10.1038/s41586-024-07575-x

The dark side of Tregs during aging

Autori: Martina Palatella Stephane M. Guillaume Michelle A. Linterman Jochen Huehn
Pubblicato in: Frontiers in Immunology, 2022, ISSN 1664-3224
Editore: International Union of Immunological Societies
DOI: 10.3389/fimmu.2022.940705

A comprehensive genetic map of cytokine responses in Lyme borreliosis

Autori: 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
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-47505-z

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

Autori: 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
Pubblicato in: Life Science Alliance, Numero 7, 2024, Pagina/e e202402674, ISSN 2575-1077
Editore: 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

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

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

Autori: 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
Pubblicato in: iScience, Numero 27, 2024, Pagina/e 109610, ISSN 2589-0042
Editore: Elsevier
DOI: 10.1016/j.isci.2024.109610

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

Autori: Igor Filippov, Leif Schauser, Pärt Peterson
Pubblicato in: npj Aging, Numero 10, 2024, ISSN 2731-6068
Editore: Nature Portfolio
DOI: 10.1038/s41514-024-00185-x

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

Autori: 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
Pubblicato in: Journal of Clinical Investigation, Numero 134, 2024, ISSN 1558-8238
Editore: 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

Autori: Lehte Türk, Igor Filippov, Christian Arnold, Judith Zaugg, Liina Tserel, Kai Kisand, Pärt Peterson
Pubblicato in: Frontiers in Immunology, Numero 15, 2024, ISSN 1664-3224
Editore: Frontiers
DOI: 10.3389/fimmu.2024.1285798

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

Autori: 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
Pubblicato in: Cell Genomics, Numero 5, 2025, Pagina/e 100918, ISSN 2666-979X
Editore: Elsevier BV
DOI: 10.1016/j.xgen.2025.100918

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

Autori: 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
Pubblicato in: Science Advances, Numero 10, 2024, ISSN 2375-2548
Editore: 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

Autori: 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
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-49806-9

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

Autori: Igor Filippov, Chinna Susan Philip, Leif Schauser, Pärt Peterson
Pubblicato in: BMC Genomics, Numero 25, 2024, ISSN 1471-2164
Editore: BioMed Central
DOI: 10.1186/s12864-024-10976-x

Book chapters (1)

Inferring Tree-Shaped Single-Cell Trajectories with Totem

Autori: António G. G. Sousa, Johannes Smolander, Sini Junttila, Laura L. Elo
Pubblicato in: Methods in Molecular Biology, Transcriptome Data Analysis, 2024, Pagina/e 169-191
Editore: 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

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

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

Autori: 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
Pubblicato in: medRxiv, 2024, ISSN 0000-0000
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.06.20.24309228