Quantitative T cell Immunology and Immunotherapy

Projektinformationen

QuanTII

ID Finanzhilfevereinbarung: 764698

DOI

10.3030/764698

Projekt abgeschlossen

EK-Unterschriftsdatum 18 Mai 2018

Startdatum 1 September 2018

Enddatum 31 August 2023

Finanziert unter

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Gesamtkosten

€ 3 923 652,96

EU-Beitrag

€ 3 923 652,96

Koordiniert durch

UNIVERSITY OF LEEDS
United Kingdom

CORDIS bietet Links zu öffentlichen Ergebnissen und Veröffentlichungen von HORIZONT-Projekten.

Links zu Ergebnissen und Veröffentlichungen von RP7-Projekten sowie Links zu einigen Typen spezifischer Ergebnisse wie Datensätzen und Software werden dynamisch von OpenAIRE abgerufen.

Leistungen

Documents, reports (20)

Individual research project descriptions
Bar-coded TCR sequence reads of human memory T cell subsets (blood and BM) (preliminary and final)

Preliminary by M36

Preliminary and validated compartmental model and code of CD8+ T cell infiltration into tumour environments

Preliminary by M36

Reference database of immune receptor alleles in healthy humans
Preliminary and validated mechanistic models of TCR repertoire dynamics and cross-reactivity

Preliminary by M36

Preliminary and validated stochastic model of the signals regulating naive T cell maintenance

Preliminary by M36

Preliminary and validated mathematical model of thymic T cell development from D1.1

Preliminary by M36

Renewal rates and lifespans of human T cell subsets (blood and BM) from D1.4 (preliminary and final)

Preliminary by M36

A review report per WP (draft and final)

A review report per WP draft and final review M36

Preliminary and validated compartmental model of human naive and memory T cell maintenance

Preliminary by M36

Estimates of diversity and uniqueness of memory T cell (blood and BM) repertoires from D2.1

Estimates of diversity and uniqueness of memory T cell blood and BM repertoires from D21

Labelling data of human memory T cell subsets in blood and bone marrow (BM) (preliminary and final)

Preliminary by M36

Personal career development plans (in place and reviews)

Reviews at M7 M19 M31

15 trained ESRs with two secondments each
Preliminary and validated probabilistic model of T cell signal integration

Preliminary by M36

Preliminary and validated computational model and code of impact of anti-cancer treatment on T cells

Preliminary by M36

Preliminary and validated computational model and code of TCR repertoire response to tumour

Preliminary by M36

Two journal articles per ESR
Data set of thymocyte competition (preliminary and final)

Preliminary by M36

Preliminary and validated computational model of the effect of checkpoint inhibitors on T cells in cancer

Preliminary by M36

Websites, patent fillings, videos etc. (4)

Public engagement activities carried out by ESRs
Two individual videos per ESR
Launch of QuanTII website
Dissemination of results and methods by QuanTII website

Other (5)

Industrial workshops (S1, S2, S3, S6, S7, T8, T9 and T10)

Industrial workshops (S1, S2, S3, S6, S7, T8, T9 and T10) - review M21

Network meetings (E2-E6, I2-I6, B2-B5, M2-M6, T7, S4 and S5)

Network meetings (E2-E6, I2-I6, B2-B5, M2-M6, T7, S4 and S5) - review M17 and M24

Complementary skill workshop (T4, T5 and T6)
Recruitment strategy in place
Conferences (E1, I1, B1, M1, T1-T3)

Review M9

Open Research Data Pilot (1)

Data management plan

Veröffentlichungen

Thesis and dissertations (4)

Mathematical models of cell signalling in heterogeneous populations

Autoren: Léa Sta
Veröffentlicht in: 2023
Herausgeber: University of Leeds

Network models of T cell receptor repertoires, cross-reactivity, and viral infection

Autoren: Daniel Luque Duque
Veröffentlicht in: 2023
Herausgeber: University of Leeds

Stochastic models of cell population dynamics and tick-borne virus transmission

Autoren: Giulia Belluccini
Veröffentlicht in: 2023
Herausgeber: University of Leeds

Statistical analysis and mathematical modelling of lymphocyte population dynamics

Autoren: HoChan Cheon
Veröffentlicht in: 2023
Herausgeber: Maynooth University

Peer reviewed articles (21)

Counting generations in birth and death processes with competing Erlang and exponential waiting times

Autoren: Giulia Belluccini, Martın Lopez-Garcia, Grant Lythe, Carmen Molina-Paris
Veröffentlicht in: Scientific Reports, 2022, Seite(n) 12:11289, ISSN 2045-2322
Herausgeber: Nature Publishing Group
DOI: 10.1038/s41598-022-14202-0

Competitive binding of STATs to receptor phospho-Tyr motifs accounts for altered cytokine responses.

Autoren: Stephan Wilmes; Polly-Anne Jeffrey; Jonathan Martinez-Fabregas; Maximillian Hafer; Paul K. Fyfe; Elizabeth Pohler; Silvia Gaggero; Martín López-García; Grant Lythe; Charles Taylor; T. Guerrier; David Launay; Suman Mitra; Jacob Piehler; Carmen Molina-París; Carmen Molina-París; Ignacio Moraga
Veröffentlicht in: eLife, Ausgabe 1, 2019, ISSN 2050-084X
Herausgeber: eLife Sciences Publications
DOI: 10.7554/elife.66014

Innate receptors modulating adaptive T cell responses: KIR-HLA interactions and T cell-mediated control of chronic viral infections

Autoren: Mora-Bitria, L., Asquith, B
Veröffentlicht in: Immunogenetics, 2023, Seite(n) 269–282, ISSN 0093-7711
Herausgeber: Springer Verlag
DOI: 10.1007/s00251-023-01293-w

Why are cell populations maintained via multiple compartments?

Autoren: Flavia Feliciangeli, Hanan Dreiwi, Martín López-García, Mario Castro Ponce, Carmen Molina-París and Grant Lythe
Veröffentlicht in: Journal of the Royal Society Interface, Ausgabe 19, 2022, Seite(n) 20220629, ISSN 1742-5689
Herausgeber: The Royal Society
DOI: 10.1098/rsif.2022.0629

Cyton2: A Model of Immune Cell Population Dynamics That Includes Familial Instructional Inheritance

Autoren: HoChan Cheon, Andrey Kan, Giulio Prevedello, Simone C. Oostindie, Simon J. Dovedi, Edwin D. Hawkins, Julia M. Marchingo, Susanne Heinzel, Ken R. Duffy, Philip D. Hodgkin
Veröffentlicht in: Frontiers in Bioinformatics, Ausgabe 1, 2021, ISSN 2673-7647
Herausgeber: Frontiers Media SA
DOI: 10.3389/fbinf.2021.723337

KIR-HLA interactions extend human CD8+ T cell lifespan in vivo

Autoren: Yan Zhang, Ada W.C. Yan, Lies Boelen, Linda Hadcocks, Arafa Salam, Daniel Padrosa Gispert, Loiza Spanos, Laura Mora Bitria, Neda Nemat-Gorgani, James A. Traherne, Chrissy Roberts, Danai Koftori, Graham P. Taylor, Daniel Forton, Paul J. Norman, Steven G.E. Marsh, Robert Busch, Derek C. Macallan, and Becca Asquith
Veröffentlicht in: The Journal of Clinical Investigation, Ausgabe 2023;133(12):e169496, 2023, ISSN 0021-9738
Herausgeber: American Society for Clinical Investigation
DOI: 10.1172/jci169496

Quantifying T Cell Cross-Reactivity: Influenza and Coronaviruses

Autoren: Jessica Ann Gaevert, Daniel Luque Duque, Grant Lythe, Carmen Molina-París, Paul Glyndwr Thomas
Veröffentlicht in: Viruses, Ausgabe 13/9, 2021, Seite(n) 1786, ISSN 1999-4915
Herausgeber: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13091786

Pyrimidine de novo synthesis inhibition selectively blocks effector but not memory T cell development

Autoren: Stefanie Scherer, Susanne G Oberle, Kristiyan Kanev, Ann-Katrin Gerullis, Ming Wu, Gustavo P de Almeida, Daniel J Puleston, Francesc Baixauli, Lilian Aly, Alessandro Greco, Tamar Nizharadze, Nils B Becker, Madlaina V Hoesslin, Lara V Donhauser, Jacqueline Berner, Talyn Chu, Hayley A McNamara, Zeynep Esencan, Patrick Roelli, Christine Wurmser, Ingo Kleiter, Maria J G T Vehreschild, Christoph A Maye
Veröffentlicht in: Nature Communications, Ausgabe 24(3), 2023, Seite(n) 501-515, ISSN 1529-2908
Herausgeber: Nature Publishing Group
DOI: 10.1038/s41590-023-01436-x

Resolving Fates and Single-Cell Transcriptomes of Hematopoietic Stem Cell Clones by PolyloxExpress Barcoding

Autoren: Weike Pei, Fuwei Shang, Xi Wang, Ann-Kathrin Fanti, Alessandro Greco, Katrin Busch, Kay Klapproth, Qin Zhang, Claudia Quedenau, Sascha Sauer, Thorsten B. Feyerabend, Thomas Höfer, Hans-Reimer Rodewald
Veröffentlicht in: Cell Stem Cell, Ausgabe 27/3, 2020, Seite(n) 383-395.e8, ISSN 1934-5909
Herausgeber: Cell Press
DOI: 10.1016/j.stem.2020.07.018

Modeling and predicting the overlap of B- and T-cell receptor repertoires in healthy and SARS-CoV-2 infected individuals

Autoren: María Ruiz Ortega, Natanael Spisak, Thierry Mora, Aleksandra M. Walczak
Veröffentlicht in: PLOS Genetics, 2023, ISSN 1553-7390
Herausgeber: Public Library of Science
DOI: 10.1371/journal.pgen.1010652

Differentiation-based model of hematopoietic stem cell functions and lineage pathways

Autoren: Thomas Höfer, Hans-Reimer Rodewald
Veröffentlicht in: Blood, Ausgabe 132/11, 2018, Seite(n) 1106-1113, ISSN 0006-4971
Herausgeber: American Society of Hematology
DOI: 10.1182/blood-2018-03-791517

Fate of a Naive T Cell: A Stochastic Journey

Autoren: Luis de la Higuera, Martín López-García, Mario Castro, Niloufar Abourashchi, Grant Lythe, Carmen Molina-París
Veröffentlicht in: Frontiers in Immunology, Ausgabe 10, 2019, ISSN 1664-3224
Herausgeber: Frontiers Media SA
DOI: 10.3389/fimmu.2019.00194

Step‐by‐step comparison of ordinary differential equation and agent‐based approaches to pharmacokinetic‐pharmacodynamic models

Autoren: Van Thuy Truong, Paul G. Baverel, Grant D. Lythe, Paolo Vicini, James W. T. Yates, Vincent F. S. Dubois
Veröffentlicht in: CPT: Pharmacometrics & Systems Pharmacology, 2021, ISSN 2163-8306
Herausgeber: Nature Publishing Group
DOI: 10.1002/psp4.12703

Fate mapping of hematopoietic stem cells reveals two pathways of native thrombopoiesis

Autoren: Mina N. F. Morcos; Congxin Li; Clara M. Munz; Alessandro Greco; Nicole Dressel; Susanne Reinhardt; Katrin Sameith; Andreas Dahl; Nils B. Becker; Axel Roers; Thomas Höfer; Alexander Gerbaulet
Veröffentlicht in: Nature Communications, 2022, Seite(n) 4504, ISSN 2041-1723
Herausgeber: Nature Publishing Group
DOI: 10.1038/s41467-022-31914-z

Comparison of blood and lymph node cells after intramuscular injection with HIV envelope immunogens

Autoren: Suzanne Day; Charandeep Kaur; Hannah M. Cheeseman; Emily de Groot; Leon R. McFarlane; Maniola Tanaka; Sofia Coelho; Tom Cole; Nana-Marie Lemm; Adrian Lim; Rogier W. Sanders; Becca Asquith; Robin J. Shattock; Katrina M. Pollock
Veröffentlicht in: Frontiers in Immunology, 2022, Seite(n) 13:991509, ISSN 1664-3224
Herausgeber: Frontiers Media
DOI: 10.3389/fimmu.2022.991509

No evidence that HLA genotype influences the driver mutations that occur in cancer patients

Autoren: Noor Kherreh, Siobhán Cleary, Cathal Seoighe
Veröffentlicht in: Cancer Immunology, Immunotherapy, 2021, ISSN 0340-7004
Herausgeber: Springer Verlag
DOI: 10.1007/s00262-021-03028-w

RBM-MHC: A Semi-Supervised Machine-Learning Method for Sample-Specific Prediction of Antigen Presentation by HLA-I Alleles

Autoren: Barbara Bravi, Jérôme Tubiana, Simona Cocco, Rémi Monasson, Thierry Mora, Aleksandra M. Walczak
Veröffentlicht in: Cell Systems, Ausgabe 12/2, 2021, Seite(n) 195-202.e9, ISSN 2405-4712
Herausgeber: Cell Press
DOI: 10.1016/j.cels.2020.11.005

Pre-existing humoral immunity to human common cold coronaviruses negatively impacts the protective SARS-CoV-2 antibody response

Autoren: Chun-Yang Lin, Joshua Wolf, David C. Brice, Yilun Sun, Macauley Locke, Sean Cherry, Ashley H. Castellaw, Marie Wehenkel, Jeremy Chase Crawford, Veronika I. Zarnitsyna, Daniel Duque, Kim J. Allison, E. Kaitlynn Allen, Scott A. Brown, Alexandra H. Mandarano, Jeremie H. Estepp, The SJTRC Study Team, Charles Taylor 5, Carmen Molina-Paris, Stacey Schultz-Cherry, Li Tang, Paul G. Thomas, Maureen A. McGa
Veröffentlicht in: Cell Host and Microbe, 2021, ISSN 1931-3128
Herausgeber: Cell Press
DOI: 10.1016/j.chom.2021.12.005

Carbon ion radiotherapy eradicates medulloblastomas with chromothripsis in an orthotopic Li-Fraumeni patient-derived mouse model

Autoren: Milena Simovic, Michiel Bolkestein, Mahmoud Moustafa, John K L Wong, Verena Körber, Sarah Benedetto, Umar Khalid, Hannah Sophia Schreiber, Manfred Jugold, Andrey Korshunov, Daniel Hübschmann, Norman Mack, Stephan Brons, Pei-Chi Wei, Michael O Breckwoldt, Sabine Heiland, Martin Bendszus, Jürgen Debus, Thomas Höfer, Marc Zapatka, Marcel Kool, Stefan M Pfister, Amir Abdollahi, Aurélie Ernst
Veröffentlicht in: Neuro-Oncology, Ausgabe Volume 23, Ausgabe 12, December 2021, 2021, Seite(n) 2028–2041, ISSN 1522-8517
Herausgeber: Duke University Press
DOI: 10.1093/neuonc/noab127

Current estimates of T cell kinetics in humans

Autoren: Derek C. Macallan, Robert Busch, Becca Asquith
Veröffentlicht in: Current Opinion in Systems Biology, Ausgabe 18, 2019, Seite(n) 77-86, ISSN 2452-3100
Herausgeber: Elsevier Ltd
DOI: 10.1016/j.coisb.2019.10.002

COGNITION: a prospective precision oncology trial for patients with early breast cancer at high risk following neoadjuvant chemotherapy

Autoren: C. Pixberg, M. Zapatka, M. Hlevnjak, S. Benedetto, J.P. Suppelna, J. Heil, K. Smetanay, L. Michel, C. Fremd, V. Körber, M. Rübsam, L. Buschhorn, S. Heublein, B. Schäfgen, M. Golatta, C. Gomez, A. von Au, M. Wallwiener, S. Wolf, N. Dikow, C. Schaaf, E. Gutjahr, M. Allgäuer, A. Stenzinger, K. Pfütze, R. Kirsten, D. Hübschmann, H.-P. Sinn, D. Jäger, A. Trumpp, R. Schlenk, T. Höfer, V. Thewes,
Veröffentlicht in: ESMO Open, 2022, ISSN 2059-7029
Herausgeber: Elsevier
DOI: 10.1016/j.esmoop.2022.100637

Non-peer reviewed articles (1)

Stochastic modelling of the T cell repertoire with epitope affinity

Autoren: Daniel F Luque Duque, Carmen Molina-Paris, Grant Lythe, Martin Lopez Garcia, Paul Glyndwr Thomas and Jessica Gaevert
Veröffentlicht in: The Journal of Immunology, Ausgabe 204 (1 Supplement), 2020, Seite(n) 94.18, ISSN 1550-6606
Herausgeber: The American Association of Immunologists, Inc.