The EUropean TRAnsplantation and INnovation (EU-TRAIN) consortium for improving diagnosis and risk stratification in kidney transplant patients

Deliverables

EU-TRAIN session in ESOT events (M28 and M54)

Publications

Interferome signature dynamics during the anti-dengue immune response: a systems biology characterization

Author(s): Júlia Nakanishi Usuda, Desirée Rodrigues Plaça, Dennyson Leandro M. Fonseca, Alexandre H. C. Marques, Igor Salerno Filgueiras, Victor Gabriel Bastos Chaves, Anny Silva Adri, Amanda Torrentes-Carvalho, Mario Hiroyuki Hirata, Paula Paccielli Freire, Rusan Catar, Gustavo Cabral-Miranda, Lena F. Schimke, Guido Moll, Otavio Cabral-Marques
Published in: Frontiers in Immunology, Issue 14, 2023, ISSN 1664-3224
Publisher: Fron. Immunol.
DOI: 10.3389/fimmu.2023.1243516

Surfing the Big Data Wave: Omics Data Challenges in Transplantation

Author(s): Ba, Rokhaya; Geffard, Estelle; Douillard, Venceslas; Simon, Françoise; Mesnard, Laurent; Vince, Nicolas ; Gourraud, Pierre-Antoine; Limou, Sophie
Published in: Transplantation, 2021, ISSN 0041-1337
Publisher: Lippincott Williams & Wilkins Ltd.
DOI: 10.1097/tp.0000000000003992

Multiple sclerosis clinical decision support system based on projection to reference datasets

Author(s): Chadia Ed-driouch , Florent Chéneau, Françoise Simon, Guillaume Pasquier, Benoit Combès, Anne Kerbrat, Emmanuelle Le Page, Sophie Limou, Nicolas Vince, David-Axel Laplaud, Franck Mars, Cedric Dumas, Gilles Edan & Pierre-Antoine Gourraud
Published in: Annals of Clinical and Translational Neurology, Issue Volume 9, Issue 12, 2022, Page(s) 1863-1873, ISSN 2328-9503
Publisher: -
DOI: 10.1002/acn3.51649

Subclinical rejection-free diagnostic after kidney transplantation using blood gene expression

Author(s): Danger R, Le Berre L, Cadoux M, Kerleau C, Papuchon E, Mai HL, Nguyen TV, Guérif P, Morelon E, Thaunat O, Legendre C, Anglicheau D, Lefaucheur C, Couzi L, Del Bello A, Kamar N, Le Quintrec M, Goutaudier V, Renaudin K, Giral M, Brouard S; DIVAT Consortium
Published in: Kidney International, Issue 2023 Jun;103(6):1167-1179, 2023, ISSN 0085-2538
Publisher: Blackwell Publishing Inc.
DOI: 10.1016/j.kint.2023.03.019

CMV-specific Cell-mediated Immunity at 3-month Prophylaxis Withdrawal Discriminates D+/R+ Kidney Transplants at Risk of Late-onset CMV Infection Regardless the Type of Induction Therapy

Author(s): Marta Jarque, Edoardo Melilli, Elena Crespo, Anna Manonelles, Nuria Montero, Joan Torras, Josep M. Cruzado, Sergi Luque, Salvador Gil-Vernet, Josep M. Grinyó, Oriol Bestard
Published in: Transplantation, Issue 102, 2023, Page(s) e472-e480, ISSN 0041-1337
Publisher: Lippincott Williams & Wilkins Ltd.
DOI: 10.1097/tp.0000000000002421

Addressing the Challenges and Barriers to the Integration of Machine Learning into Clinical Practice: An Innovative Method to Hybrid Human–Machine Intelligence

Author(s): Chadia Ed-driouch, Franck Mars, Pierre-Antoine Gourraud, Cédric Dumas
Published in: Sensors, Issue Volume 22, Issue 21, 2022, Page(s) 8313, ISSN 1424-8220
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/s22218313

A Machine Learning-Driven Virtual Biopsy System For Kidney Transplant Patients

Author(s): Daniel Yoo, Gillian Divard, Marc Raynaud, Aaron Cohen, Tom D. Mone, John Thomas Rosenthal, Andrew J. Bentall, Mark D. Stegall, Maarten Naesens, Huanxi Zhang, Changxi Wang, Juliette Gueguen, Nassim Kamar, Antoine Bouquegneau, Ibrahim Batal, Shana M. Coley, John S. Gill, Federico Oppenheimer, Erika De Sousa-Amorim, Dirk R. J. Kuypers, Antoine Durrbach, Daniel Seron, Marion Rabant, Jean-Paul Duong Va
Published in: Nature Communications, Issue 15, 2024, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-44595-z

Immunosuppressant drugs and quality-of-life outcomes in kidney transplant recipients: An international cohort study (EU-TRAIN)

Author(s): François R Girardin, Anna Nicolet, Oriol Bestard, Carmen Lefaucheur, Klemens Budde, Fabian Halleck, Sophie Brouard, Magali Giral, Pierre-Antoine Gourraud, Béatrice Horcholle, Jean Villard, Joachim Marti, Alexandre Loupy
Published in: Frontiers in Pharmacology, Issue 2023 April 27, 2023, Page(s) 14:1040584, ISSN 1663-9812
Publisher: Frontiers Media S.A.
DOI: 10.3389/fphar.2023.1040584

High-dimensional mass cytometry identified circulating natural killer T-cell subsets associated with protection from cytomegalovirus infection in kidney transplant recipients

Author(s): Laura Donadeu, Thomas Jouve, Sofia Bin, Susan Hartzell, Elena Crespo, Alba Torija, Marta Jarque, Delphine Kevella, José Zúñiga, Weijia Zhang, Zeguo Sun, Alberto Verlato, Mónica Martínez-Gallo, Cristina Font-Miñarro, Maria Meneghini, Nestor Toapanta, Irina B. Torres, Joana Sellarés, Manel Perelló, Hannah Kaminski, Lionel Couzi, Alexandre Loupy, Gaetano La Manna, Francesc Moreso, Paolo Crave
Published in: Kidney International, 2024, ISSN 0085-2538
Publisher: Blackwell Publishing Inc.
DOI: 10.1016/j.kint.2024.03.027

Autoantibodies from patients with kidney allograft vasculopathy stimulate a proinflammatory switch in endothelial cells and monocytes mediated via GPCR-directed PAR1-TNF-α signaling

Author(s): Guido Moll, Christian Luecht, Michael Adu Gyamfi, Dennyson L. M. da Fonseca, Pinchao Wang, Hongfan Zhao, Zexian Gong, Lei Chen, Muhamad Imtiaz Ashraf, Harald Heidecke, Alexander Maximilian Hackel, Duska Dragun, Klemens Budde, Olaf Penack, Gabriela Riemekasten, Otávio Cabral-Marques, Janusz Witowski, Rusan Catar
Published in: Frontiers in Immunology, Issue 14, 2023, ISSN 1664-3224
Publisher: Frontiers Media S.A.
DOI: 10.3389/fimmu.2023.1289744

Distributing HLA database in histocompatibility: a shift in HLA data governance

Author(s): Sirine Sayadi 1, 2 Venceslas Douillard 3, 4 Nicolas Vince 3, 4 Mario Südholt 1, 2 Pierre-Antoine Gourraud 4, 3
Published in: Exploration of Immunology , 2022, ISSN 2768-6655
Publisher: Exploration of Immunology

Race-free estimated glomerular filtration rate equation in kidney transplant recipients: development and validation study

Author(s): Raynaud M, Al-Awadhi S, Juric I, Divard G, Lombardi Y, Basic-Jukic N, Aubert O, Dubourg L, Masson I, Mariat C, Prié D, Pernin V, Le Quintrec M, Larson TS, Stegall MD, Bikbov B, Ruggenenti P, Mesnard L, Ibrahim HN, Nielsen MB, Matas AJ, Nankivell BJ, Benjamens S, Pol RA, Bakker SJL, Jouven X, Legendre C, Kamar N, Smith BH, Wadei HM, Durrbach A, Vincenti F, Remuzzi G, Lefaucheur C, Bentall AJ, Loup
Published in: The BMJ, Issue 2023 May, 2023, Page(s) 381:e073654, ISSN 0959-8138
Publisher: BMJ
DOI: 10.1136/bmj-2022-073654

An automated histological classification system for precision diagnostics of kidney allografts

Author(s): Yoo D, Goutaudier V, Divard G, Gueguen J, Astor BC, Aubert O, Raynaud M, Demir Z, Hogan J, Weng P, Smith J, Garro R, Warady BA, Zahr RS, Sablik M, Twombley K, Couzi L, Berney T, Boyer O, Duong-Van-Huyen JP, Giral M, Alsadi A, Gourraud PA, Morelon E, Le Quintrec M, Brouard S, Legendre C, Anglicheau D, Villard J, Zhong W, Kamar N, Bestard O, Djamali A, Budde K, Haas M, Lefaucheur C, Rabant M, Loupy
Published in: Nature medicine, Issue 2023 May, 2023, Page(s) 29(5):1211-1220, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-023-02323-6

Comparison of artificial intelligence and human-based prediction and stratification of the risk of long-term kidney allograft failure.

Author(s): Divard G, Raynaud M, Tatapudi VS, Abdalla B, Bailly E, Assayag M, Binois Y, Cohen R, Zhang H, Ulloa C, Linhares K, Tedesco HS, Legendre C, Jouven X, Montgomery RA, Lefaucheur C, Aubert O, Loupy A
Published in: Communications medicine, Issue 2022 Nov, 2022, Page(s) 2(1):150, ISSN 2730-664X
Publisher: PubMed Central
DOI: 10.1038/s43856-022-00201-9

Evaluation of non-invasive biomarkers of kidney allograft rejection in a prospective multicenter unselected cohort study (EU-TRAIN)

Author(s): Valentin Goutaudier, Richard Danger, Rusan Ali Catar, Maud Racapé, Aurélie Philippe, Michelle Elias, Marc Raynaud, Olivier Aubert, Didier Bouton, François Girardin, Éric Vicaut, Sarhan Yaiche, Jacques Demotes, Harald Heidecke, Jean-Luc Taupin, Christine Randoux-Lebrun, Mohamad Zaidan, Emmanuelle Papuchon, Hoa Le Mai, Thi-Van-Ha Nguyen, Francesc Moreso, Thierry Berney, Jean Villard, Christophe
Published in: Kidney International, 2024, ISSN 0085-2538
Publisher: Blackwell Publishing Inc.
DOI: 10.1016/j.kint.2024.07.027

Long-Term Outcomes after Conversion to a Belatacept-Based Immunosuppression in Kidney Transplant Recipients

Author(s): Gillian Divard, Olivier Aubert, Charlotte Debiais-Deschamp, Marc Raynaud, Valentin Goutaudier, Marta Sablik, Caroline Sayeg, Christophe Legendre, Julie Obert, Dany Anglicheau, Carmen Lefaucheur, Alexandre Loupy
Published in: Clinical Journal of the American Society of Nephrology, 2024, ISSN 1555-9041
Publisher: American Society of Nephrology
DOI: 10.2215/cjn.0000000000000411

The global evolution and impact of systems biology and artificial intelligence in stem cell research and therapeutics development: a scoping review

Author(s): Thayna Silva-Sousa, Júlia Nakanishi Usuda, Nada Al-Arawe, Francisca Frias, Irene Hinterseher, Rusan Catar, Christian Luecht, Katarina Riesner, Alexander Hackel, Lena F Schimke, Haroldo Dutra Dias, Igor Salerno Filgueiras, Helder I Nakaya, Niels Olsen Saraiva Camara, Stefan Fischer, Gabriela Riemekasten, Olle Ringdén, Olaf Penack, Tobias Winkler, Georg Duda, Dennyson Leandro M Fonseca, Otávio Ca
Published in: Stem Cells, 2024, ISSN 1066-5099
Publisher: AlphaMed Press Inc
DOI: 10.1093/stmcls/sxae054

The Pseudokinase TRIB1 in Immune Cells and Associated Disorders

Author(s): Richard Danger, Yodit Feseha and Sophie Brouard
Published in: Cancers, 2022, Page(s) 14(4), ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers14041011

Pretransplant Donor-specific IFNγ ELISPOT as a Predictor of Graft Rejection

Author(s): Nuria Montero, Samira Farouk, Ilaria Gandolfini, Elena Crespo, Marta Jarque, Maria Meneghini, Alba Torija, Umberto Maggiore, Paolo Cravedi, Oriol Bestard
Published in: Transplantation Direct, Issue 5/5, 2019, Page(s) e451, ISSN 2373-8731
Publisher: Wolters Kluwer Health, Inc
DOI: 10.1097/txd.0000000000000886

TCL1A, B Cell Regulation and Tolerance in Renal Transplantation

Author(s): François Brinas, Richard Danger and Sophie Brouard
Published in: Cells, 2021, Page(s) 10(6), ISSN 2073-4409
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cells10061367

Antibody Mediated Rejection and T-cell Mediated Rejection Molecular Signatures Using Next-Generation Sequencing in Kidney Transplant Biopsies

Author(s): Esteban Cortes Garcia, Alessia Giarraputo, Maud Racapé, Valentin Goutaudier, Cindy Ursule-Dufait, Pierre de la Grange, Lucie Adoux, Marc Raynaud, Clément Couderau, Fariza Mezine, Jessie Dagobert, Oriol Bestard, Francesc Moreso, Jean Villard, Fabian Halleck, Magali Giral, Sophie Brouard, Richard Danger, Pierre-Antoine Gourraud, Marion Rabant, Lionel Couzi, Moglie Le Quintrec, Nassim Kamar, Emmanu
Published in: Transplant International, Issue 37, 2024, ISSN 1432-2277
Publisher: Wiley
DOI: 10.3389/ti.2024.13043

Editorial: Emerging talents in alloimmunity and transplantation: 2022

Author(s): Guido Moll, Wai H. Lim, Olaf Penack
Published in: Frontiers in Immunology, Issue 15, 2024, ISSN 1664-3224
Publisher: Front. Immunol.
DOI: 10.3389/fimmu.2024.1393026

An exome-wide study of renal operational tolerance

Author(s): Massart A*, Danger R*, Olsen C*, Emond M J, Viklicky O, Jacquemin V, Soblet J, Croes D, Perazzolo C, Hruba P, Daneels D, Caljon B, Sever M S, Pascual J, Pirson I, Ghisdal L, Smits G, Giral M, Abramowicz D, Abramowicz M and Brouard S
Published in: Frontiers in Medicine, Issue 17 May 2023 Sec. Nephrology Volume 9 - 2022, 2023, ISSN 2296-858X
Publisher: -
DOI: 10.3389/fmed.2022.976248

FaDA: A web application for regular laboratory data analyses

Author(s): Danger R, Moiteaux Q, Feseha Y, Geffard E, Ramstein G, Brouard S
Published in: PLoS One, 2021, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0261083

Secure distribution of Factor Analysis of Mixed Data (FAMD) and its application to personalized medicine of transplanted patients

Author(s): S Sayadi, E Geffard, M Südholt, N Vince, PA Gourraud
Published in: Springer nature, 2021, ISSN 2509-4807
Publisher: Springer
DOI: 10.1007/978-3-030-75100-5_44

Structural insights into the catalytic mechanism of granzyme B upon substrate and inhibitor binding

Author(s): Tripathi N, Danger R, Chesneau M, Brouard S, Laurent AD
Published in: Journal of Molecular Graphics and Modelling, Issue 2022 Mar 22;114:108167, 2022, ISSN 1873-4243
Publisher: ELSEVIER
DOI: 10.1016/j.jmgm.2022.108167

Prognostic Biomarkers in Kidney Transplantation: A Systematic Review and Critical Appraisal

Author(s): Marc Raynaud, Solaf Al-Awadhi, Kevin Louis, Huanxi Zhang, Xiaojun Su, Valentin Goutaudier, Jiali Wang, Zeynep Demir, Yongcheng Wei, Agathe Truchot, Antoine Bouquegneau, Arnaud Del Bello, Élodie Bailly, Yannis Lombardi, Mehdi Maanaoui, Alessia Giarraputo, Sofia Naser, Gillian Divard, Olivier Aubert, Mohammad Hassan Murad, Changxi Wang, Longshan Liu, Oriol Bestard, Maarten Naesens, John J. Friedewa
Published in: Journal of the American Society of Nephrology, Issue 35, 2024, Page(s) 177-188, ISSN 1046-6673
Publisher: Lippincott Williams & Wilkins Ltd.
DOI: 10.1681/asn.0000000000000260

Blood Gene Signature as a Biomarker for Subclinical Kidney Allograft Rejection: Where Are We?

Author(s): Christophe Masset, Richard Danger, Nicolas Degauque, Jacques Dantal, Magali Giral, Sophie Brouard
Published in: Transplantation, 2024, ISSN 0041-1337
Publisher: Lippincott Williams & Wilkins Ltd.
DOI: 10.1097/tp.0000000000005105

Editorial: Pharmacoeconomics in the era of health technology assessment and outcomes research to prioritize resource use, innovation and investmentwww.frontiersin.org

Author(s): François R. Girardin1, Karen Cohen, Matthias Schwenkglenks, Isabelle Durand-Zaleski
Published in: Frontiers in Pharmacology, Issue 2023 May 16, 2023, Page(s) 14:1210002, ISSN 1663-9812
Publisher: Frontiers Media S.A.
DOI: 10.3389/fphar.2023.1210002

Relevance of the Banff Human Organ Transplant Consensus Gene Panel for Detecting Antibody and T-Cell–Mediated Rejection of Kidney Allografts

Author(s): Alessia Giarraputo, Valentin Goutaudier, Blaise Robin, Annalisa Angelini, Marta Sablik, Olivier Aubert, Ivy A. Rosales, Rex N. Smith, Candice Roufosse, Benjamin Adam, Mark Haas, Robert B. Colvin, Carmen Lefaucheur, Michael Mengel, Dina Zielinski, Alexandre Loupy
Published in: Kidney International Reports, Issue 9, 2024, Page(s) 2290-2294, ISSN 2468-0249
Publisher: Elsevier Inc.
DOI: 10.1016/j.ekir.2024.04.054

Deliverables

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