{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,23]],"date-time":"2026-04-23T18:32:33Z","timestamp":1776969153499,"version":"3.51.4"},"reference-count":72,"publisher":"Springer Science and Business Media LLC","license":[{"start":{"date-parts":[[2024,9,11]],"date-time":"2024-09-11T00:00:00Z","timestamp":1726012800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2024,9,11]],"date-time":"2024-09-11T00:00:00Z","timestamp":1726012800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"name":"Stichting ME TO YOU"},{"DOI":"10.13039\/501100003130","name":"Fonds Wetenschappelijk Onderzoek","doi-asserted-by":"publisher","award":["1S48819N"],"award-info":[{"award-number":["1S48819N"]}],"id":[{"id":"10.13039\/501100003130","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003130","name":"Fonds Wetenschappelijk Onderzoek","doi-asserted-by":"publisher","award":["1S24517N"],"award-info":[{"award-number":["1S24517N"]}],"id":[{"id":"10.13039\/501100003130","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003130","name":"Fonds Wetenschappelijk Onderzoek","doi-asserted-by":"publisher","award":["1861219N"],"award-info":[{"award-number":["1861219N"]}],"id":[{"id":"10.13039\/501100003130","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Baillet Latour Fund","award":["\u2018\u2018Cellular Immunotherapy\u2019\u2019 grant"],"award-info":[{"award-number":["\u2018\u2018Cellular Immunotherapy\u2019\u2019 grant"]}]},{"DOI":"10.13039\/501100011851","name":"Kom op tegen Kanker","doi-asserted-by":"publisher","award":["Emmanuel van der Schueren fellowship"],"award-info":[{"award-number":["Emmanuel van der Schueren fellowship"]}],"id":[{"id":"10.13039\/501100011851","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100007660","name":"Universiteit Antwerpen","doi-asserted-by":"publisher","award":["DOCPRO PhD grant of the Special Research Fund"],"award-info":[{"award-number":["DOCPRO PhD grant of the Special Research Fund"]}],"id":[{"id":"10.13039\/501100007660","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100007660","name":"Universiteit Antwerpen","doi-asserted-by":"publisher","award":["BOF-KP2018"],"award-info":[{"award-number":["BOF-KP2018"]}],"id":[{"id":"10.13039\/501100007660","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Ann Hematol"],"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    The Wilms\u2019 tumor protein 1 (WT1) is a well-known and prioritized tumor-associated antigen expressed in numerous solid and blood tumors. Its abundance and immunogenicity have led to the development of different WT1-specific immune therapies. The driving player in these therapies, the WT1-specific T-cell receptor (TCR) repertoire, has received much less attention. Importantly, T cells with high affinity against the WT1 self-antigen are normally eliminated after negative selection in the thymus and are thus rare in peripheral blood. Here, we developed computational models for the robust and fast identification of WT1-specific TCRs from TCR repertoire data. To this end, WT1\n                    <jats:sub>37-45<\/jats:sub>\n                    (WT1-37) and WT1\n                    <jats:sub>126-134<\/jats:sub>\n                    (WT1-126)-specific T cells were isolated from WT1 peptide-stimulated blood of healthy individuals. The TCR repertoire from these WT1-specific T cells was sequenced and used to train a pattern recognition model for the identification of WT1-specific TCR patterns for the WT1-37 or WT1-126 epitopes. The resulting computational models were applied on an independent published dataset from acute myeloid leukemia (AML) patients, treated with hematopoietic stem cell transplantation, to track WT1-specific TCRs\n                    <jats:italic>in silico<\/jats:italic>\n                    . Several WT1-specific TCRs were found in AML patients. Subsequent clustering analysis of all repertoires indicated the presence of more diverse TCR patterns within the WT1-specific TCR repertoires of AML patients in complete remission in contrast to relapsing patients. We demonstrate the possibility of tracking WT1-37 and WT1-126-specific TCRs directly from TCR repertoire data using computational methods, eliminating the need for additional blood samples and experiments for the two studied WT1 epitopes.\n                  <\/jats:p>","DOI":"10.1007\/s00277-024-05919-1","type":"journal-article","created":{"date-parts":[[2024,9,11]],"date-time":"2024-09-11T05:03:21Z","timestamp":1726031001000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Analysis of Wilms\u2019 tumor protein 1 specific TCR repertoire in AML patients uncovers higher diversity in patients in remission than in relapsed"],"prefix":"10.1007","author":[{"given":"Sofie","family":"Gielis","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Donovan","family":"Flumens","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sanne","family":"van der Heijden","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maarten","family":"Versteven","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hans","family":"De Reu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Esther","family":"Bartholomeus","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jolien","family":"Schippers","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Diana","family":"Campillo-Davo","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zwi N.","family":"Berneman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"S\u00e9bastien","family":"Anguille","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Evelien","family":"Smits","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Benson","family":"Ogunjimi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eva","family":"Lion","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kris","family":"Laukens","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pieter","family":"Meysman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2024,9,11]]},"reference":[{"issue":"5","key":"5919_CR1","doi-asserted-by":"publisher","first-page":"704","DOI":"10.1002\/ijc.11623","volume":"108","author":"J Greiner","year":"2004","unstructured":"Greiner J, Ringhoffer M, Taniguchi M, Li L, Schmitt A, Shiku H et al (2004) mRNA expression of leukemia-associated antigens in patients with acute myeloid leukemia for the development of specific immunotherapies. Int J cancer 108(5):704\u2013711","journal-title":"Int J cancer"},{"issue":"10","key":"5919_CR2","doi-asserted-by":"publisher","first-page":"2186","DOI":"10.1038\/leu.2012.145","volume":"26","author":"S Anguille","year":"2012","unstructured":"Anguille S, Van Tendeloo VF, Berneman ZN (2012) Leukemia-associated antigens and their relevance to the immunotherapy of acute myeloid leukemia. Leukemia 26(10):2186\u20132196","journal-title":"Leukemia"},{"issue":"5","key":"5919_CR3","first-page":"151","volume":"10","author":"H Goel","year":"2020","unstructured":"Goel H, Rahul E, Gupta AK, Meena JP, Chopra A, Ranjan A et al (2020) Molecular update on biology of Wilms Tumor 1 gene and its applications in acute myeloid leukemia. Am J Blood Res 10(5):151\u2013160","journal-title":"Am J Blood Res"},{"issue":"6","key":"5919_CR4","doi-asserted-by":"publisher","first-page":"804","DOI":"10.1038\/modpathol.3800588","volume":"19","author":"S Nakatsuka","year":"2006","unstructured":"Nakatsuka S, Oji Y, Horiuchi T, Kanda T, Kitagawa M, Takeuchi T et al (2006) Immunohistochemical detection of WT1 protein in a variety of cancer cells. Mod Pathol 19(6):804\u2013814","journal-title":"Mod Pathol"},{"issue":"7","key":"5919_CR5","first-page":"3715","volume":"36","author":"K Naitoh","year":"2016","unstructured":"Naitoh K, Kamigaki T, Matsuda E, Ibe H, Okada S, Oguma ERI et al (2016) Immunohistochemical analysis of WT1 Antigen expression in various solid Cancer cells. Anticancer Res 36(7):3715\u20133724","journal-title":"Anticancer Res"},{"key":"5919_CR6","doi-asserted-by":"publisher","first-page":"8924","DOI":"10.1038\/srep08924","volume":"5","author":"X Qi","year":"2015","unstructured":"Qi X, Zhang F, Wu H, Liu J, Zong B, Xu C et al (2015) Wilms\u2019 tumor 1 (WT1) expression and prognosis in solid cancer patients: a systematic review and meta-analysis. Sci Rep 5:8924","journal-title":"Sci Rep"},{"issue":"5","key":"5919_CR7","doi-asserted-by":"publisher","first-page":"377","DOI":"10.1093\/jjco\/hyp194","volume":"40","author":"H Sugiyama","year":"2010","unstructured":"Sugiyama H (2010) WT1 (Wilms\u2019 Tumor Gene 1): Biology and Cancer Immunotherapy. Jpn J Clin Oncol 40(5):377\u2013387","journal-title":"Jpn J Clin Oncol"},{"issue":"17","key":"5919_CR8","doi-asserted-by":"publisher","first-page":"5323","DOI":"10.1158\/1078-0432.CCR-09-0737","volume":"15","author":"MA Cheever","year":"2009","unstructured":"Cheever MA, Allison JP, Ferris AS, Finn OJ, Hastings BM, Hecht TT et al (2009) The prioritization of cancer antigens: a national cancer institute pilot project for the acceleration of translational research. Clin cancer Res 15(17):5323\u20135337","journal-title":"Clin cancer Res"},{"key":"5919_CR9","doi-asserted-by":"publisher","unstructured":"Hastie ND (2017) Wilms\u2019 tumour 1 (WT1) in development, homeostasis and disease. Development [Internet] 144(16):2862\u20132872. https:\/\/doi.org\/10.1242\/dev.153163","DOI":"10.1242\/dev.153163"},{"key":"5919_CR10","doi-asserted-by":"publisher","first-page":"559152","DOI":"10.3389\/fimmu.2020.559152","volume":"11","author":"M Plantinga","year":"2020","unstructured":"Plantinga M, Lo Presti V, de Haar CG, D\u00fcnnebach E, Madrigal A, Lindemans CA et al (2020) Clinical Grade production of Wilms\u2019 Tumor-1 loaded cord blood-derived dendritic cells to prevent Relapse in Pediatric AML after Cord Blood Transplantation. Front Immunol 11:559152","journal-title":"Front Immunol"},{"issue":"15","key":"5919_CR11","doi-asserted-by":"publisher","first-page":"1713","DOI":"10.1182\/blood-2017-04-780155","volume":"130","author":"S Anguille","year":"2017","unstructured":"Anguille S, Van de Velde AL, Smits EL, Van Tendeloo VF, Juliusson G, Cools N et al (2017) Dendritic cell vaccination as postremission treatment to prevent or delay relapse in acute myeloid leukemia. Blood 130(15):1713\u20131721","journal-title":"Blood"},{"issue":"5","key":"5919_CR12","doi-asserted-by":"publisher","first-page":"579","DOI":"10.3390\/jcm8050579","volume":"8","author":"HH Van Acker","year":"2019","unstructured":"Van Acker HH, Versteven M, Lichtenegger FS, Roex G, Campillo-Davo D, Lion E et al (2019) Dendritic cell-based immunotherapy of Acute myeloid leukemia. J Clin Med 8(5):579","journal-title":"J Clin Med"},{"key":"5919_CR13","doi-asserted-by":"publisher","first-page":"36","DOI":"10.3389\/fimmu.2015.00036","volume":"6","author":"A Di Stasi","year":"2015","unstructured":"Di Stasi A, Jimenez AM, Minagawa K, Al-Obaidi M, Rezvani K (2015) Review of the results of WT1 peptide vaccination strategies for myelodysplastic syndromes and Acute myeloid leukemia from nine different studies. Front Immunol 6:36","journal-title":"Front Immunol"},{"issue":"3","key":"5919_CR14","doi-asserted-by":"publisher","first-page":"224","DOI":"10.1182\/bloodadvances.2017014175","volume":"2","author":"PG Maslak","year":"2018","unstructured":"Maslak PG, Dao T, Bernal Y, Chanel SM, Zhang R, Frattini M et al (2018) Phase 2 trial of a multivalent WT1 peptide vaccine (galinpepimut-S) in acute myeloid leukemia. Blood Adv 2(3):224\u2013234","journal-title":"Blood Adv"},{"issue":"1","key":"5919_CR15","doi-asserted-by":"publisher","first-page":"236","DOI":"10.1182\/blood-2007-08-108241","volume":"111","author":"K Rezvani","year":"2008","unstructured":"Rezvani K, Yong ASM, Mielke S, Savani BN, Musse L, Superata J et al (2008) Leukemia-associated antigen-specific T-cell responses following combined PR1 and WT1 peptide vaccination in patients with myeloid malignancies. Blood 111(1):236\u2013242","journal-title":"Blood"},{"issue":"8","key":"5919_CR16","doi-asserted-by":"publisher","first-page":"1788","DOI":"10.1038\/leu.2016.373","volume":"31","author":"S Rafiq","year":"2017","unstructured":"Rafiq S, Purdon TJ, Daniyan AF, Koneru M, Dao T, Liu C et al (2017) Optimized T-cell receptor-mimic chimeric antigen receptor T cells directed toward the intracellular Wilms Tumor 1 antigen. Leukemia 31(8):1788\u20131797","journal-title":"Leukemia"},{"issue":"18","key":"5919_CR17","doi-asserted-by":"publisher","first-page":"4519","DOI":"10.3390\/cancers13184519","volume":"13","author":"D Campillo-Davo","year":"2021","unstructured":"Campillo-Davo D, Anguille S, Lion E (2021) Trial Watch: Adoptive TCR-Engineered T-Cell immunotherapy for Acute myeloid leukemia. Cancers (Basel) 13(18):4519","journal-title":"Cancers (Basel)"},{"key":"5919_CR18","doi-asserted-by":"crossref","unstructured":"Kang S, Li Y, Qiao J, Meng X, He Z, Gao X et al (2022) Antigen-Specific TCR-T cells for Acute myeloid leukemia: state of the Art and challenges. 12, Front Oncol","DOI":"10.3389\/fonc.2022.787108"},{"issue":"18","key":"5919_CR19","doi-asserted-by":"publisher","first-page":"1985","DOI":"10.1182\/blood-2017-06-791202","volume":"130","author":"I Tawara","year":"2017","unstructured":"Tawara I, Kageyama S, Miyahara Y, Fujiwara H, Nishida T, Akatsuka Y et al (2017) Safety and persistence of WT1-specific T-cell receptor gene\u2009\u2013\u2009transduced lymphocytes in patients with AML and MDS. Blood 130(18):1985\u20131994","journal-title":"Blood"},{"issue":"7","key":"5919_CR20","doi-asserted-by":"publisher","first-page":"1064","DOI":"10.1038\/s41591-019-0472-9","volume":"25","author":"AG Chapuis","year":"2019","unstructured":"Chapuis AG, Egan DN, Bar M, Schmitt TM, McAfee MS, Paulson KG et al (2019) T cell receptor gene therapy targeting WT1 prevents acute myeloid leukemia relapse post-transplant. Nat Med 25(7):1064\u20131072","journal-title":"Nat Med"},{"issue":"25","key":"5919_CR21","doi-asserted-by":"publisher","first-page":"2655","DOI":"10.1182\/blood.2020010477","volume":"138","author":"C Augsberger","year":"2021","unstructured":"Augsberger C, H\u00e4nel G, Xu W, Pulko V, Hanisch LJ, Augustin A et al (2021) Targeting intracellular WT1 in AML with a novel RMF-peptide-MHC-specific T-cell bispecific antibody. Blood 138(25):2655\u20132669","journal-title":"Blood"},{"issue":"3","key":"5919_CR22","doi-asserted-by":"publisher","first-page":"333","DOI":"10.1016\/j.cell.2005.07.015","volume":"122","author":"KC Garcia","year":"2005","unstructured":"Garcia KC, Adams EJ (2005) How the T cell receptor sees Antigen\u2014A structural view. Cell 122(3):333\u2013336","journal-title":"Cell"},{"issue":"4","key":"5919_CR23","doi-asserted-by":"publisher","first-page":"914","DOI":"10.1016\/S0021-9258(17)49904-2","volume":"295","author":"RA Mariuzza","year":"2020","unstructured":"Mariuzza RA, Agnihotri P, Orban J (2020) The structural basis of T-cell receptor (TCR) activation: an enduring enigma. J Biol Chem 295(4):914\u2013925","journal-title":"J Biol Chem"},{"issue":"1","key":"5919_CR24","doi-asserted-by":"publisher","first-page":"E16","DOI":"10.1371\/journal.pbio.0000016","volume":"1","author":"E Market","year":"2003","unstructured":"Market E, Papavasiliou FN (2003) V(D)J recombination and the evolution of the adaptive immune system. PLoS Biol 1(1):E16","journal-title":"PLoS Biol"},{"issue":"1","key":"5919_CR25","doi-asserted-by":"publisher","first-page":"47","DOI":"10.1111\/cei.12339","volume":"177","author":"G Dolton","year":"2014","unstructured":"Dolton G, Lissina A, Skowera A, Ladell K, Tungatt K, Jones E et al (2014) Comparison of peptide\u2013major histocompatibility complex tetramers and dextramers for the identification of antigen-specific T cells. Clin Exp Immunol 177(1):47\u201363","journal-title":"Clin Exp Immunol"},{"issue":"11","key":"5919_CR26","doi-asserted-by":"publisher","first-page":"1043","DOI":"10.1002\/cyto.a.20594","volume":"73A","author":"M W\u00f6lfl","year":"2008","unstructured":"W\u00f6lfl M, Kuball J, Eyrich M, Schlegel PG, Greenberg PD (2008) Use of CD137 to study the full repertoire of CD8\u2009+\u2009T cells without the need to know epitope specificities. Cytom Part A 73A(11):1043\u20131049","journal-title":"Cytom Part A"},{"issue":"1","key":"5919_CR27","doi-asserted-by":"publisher","first-page":"201","DOI":"10.1182\/blood-2006-11-056168","volume":"110","author":"M Wolfl","year":"2007","unstructured":"Wolfl M, Kuball J, Ho WY, Nguyen H, Manley TJ, Bleakley M et al (2007) Activation-induced expression of CD137 permits detection, isolation, and expansion of the full repertoire of CD8\u2009+\u2009T cells responding to antigen without requiring knowledge of epitope specificities. Blood 110(1):201\u2013210","journal-title":"Blood"},{"issue":"9","key":"5919_CR28","doi-asserted-by":"publisher","first-page":"1461","DOI":"10.1093\/bioinformatics\/bty821","volume":"35","author":"P Meysman","year":"2019","unstructured":"Meysman P, De Neuter N, Gielis S, Bui Thi D, Ogunjimi B, Laukens K (2019) On the viability of unsupervised T-cell receptor sequence clustering for epitope preference. Bioinformatics 35(9):1461\u20131468","journal-title":"Bioinformatics"},{"key":"5919_CR29","doi-asserted-by":"crossref","unstructured":"Gielis S, Moris P, Bittremieux W, De Neuter N, Ogunjimi B, Laukens K et al (2019) Detection of enriched T cell epitope specificity in full T cell receptor sequence repertoires. Front Immunol. ;10","DOI":"10.3389\/fimmu.2019.02820"},{"issue":"24","key":"5919_CR30","doi-asserted-by":"publisher","first-page":"4865","DOI":"10.1093\/bioinformatics\/btab446","volume":"37","author":"S Valkiers","year":"2021","unstructured":"Valkiers S, Van Houcke M, Laukens K, Meysman P (2021) ClusTCR: a python interface for rapid clustering of large sets of CDR3 sequences with unknown antigen specificity. Bioinformatics 37(24):4865\u20134867","journal-title":"Bioinformatics"},{"issue":"6","key":"5919_CR31","doi-asserted-by":"publisher","first-page":"e3000314","DOI":"10.1371\/journal.pbio.3000314","volume":"17","author":"MV Pogorelyy","year":"2019","unstructured":"Pogorelyy MV, Minervina AA, Shugay M, Chudakov DM, Lebedev YB, Mora T et al (2019) Detecting T-cell receptors involved in immune responses from single repertoire snapshots. PLoS Biol 17(6):e3000314","journal-title":"PLoS Biol"},{"key":"5919_CR32","doi-asserted-by":"crossref","unstructured":"Campillo-Davo D, Fujiki F, Van den Bergh JMJ, De Reu H, Smits ELJM, Goossens H et al (2018) Efficient and non-genotoxic RNA-Based Engineering of Human T Cells Using Tumor-Specific T cell receptors with minimal TCR mispairing. Front Immunol. ;9","DOI":"10.3389\/fimmu.2018.02503"},{"issue":"1","key":"5919_CR33","doi-asserted-by":"publisher","first-page":"102053","DOI":"10.1016\/j.xpro.2023.102053","volume":"4","author":"S van der Heijden","year":"2023","unstructured":"van der Heijden S, Flumens D, Versteven M, Peeters S, Reu H, De, Campillo-Davo D et al (2023) In vitro expansion of Wilms\u2019 tumor protein 1 epitope-specific primary T cells from healthy human peripheral blood mononuclear cells. STAR Protoc 4(1):102053","journal-title":"STAR Protoc"},{"issue":"24","key":"5919_CR34","doi-asserted-by":"publisher","first-page":"8799","DOI":"10.1158\/1078-0432.CCR-05-1314","volume":"11","author":"K Rezvani","year":"2005","unstructured":"Rezvani K, Brenchley JM, Price DA, Kilical Y, Gostick E, Sewell AK et al (2005) T-cell responses directed against multiple HLA-A*0201-restricted epitopes derived from Wilms\u2019 tumor 1 protein in patients with leukemia and healthy donors: identification, quantification, and characterization. Clin cancer Res 11(24):8799\u20138807","journal-title":"Clin cancer Res"},{"issue":"1","key":"5919_CR35","doi-asserted-by":"publisher","first-page":"1065","DOI":"10.1038\/s41467-019-08871-1","volume":"10","author":"M Noviello","year":"2019","unstructured":"Noviello M, Manfredi F, Ruggiero E, Perini T, Oliveira G, Cortesi F et al (2019) Bone marrow central memory and memory stem T-cell exhaustion in AML patients relapsing after HSCT. Nat Commun 10(1):1065","journal-title":"Nat Commun"},{"issue":"174","key":"5919_CR36","doi-asserted-by":"publisher","first-page":"174ra27","DOI":"10.1126\/scitranslmed.3004916","volume":"5","author":"AG Chapuis","year":"2013","unstructured":"Chapuis AG, Ragnarsson GB, Nguyen HN, Chaney CN, Pufnock JS, Schmitt TM et al (2013) Transferred WT1-Reactive CD8\u2009+\u2009T cells can mediate antileukemic activity and persist in post-transplant patients. Sci Transl Med 5(174):174ra27\u2013174ra27","journal-title":"Sci Transl Med"},{"key":"5919_CR37","doi-asserted-by":"crossref","unstructured":"Elias G, Meysman P, Bartholomeus E, De Neuter N, Keersmaekers N, Suls A et al (2022) Preexisting memory CD4 T cells in na\u00efve individuals confer robust immunity upon hepatitis B vaccination. Elife. ;11","DOI":"10.7554\/eLife.68388"},{"issue":"4","key":"5919_CR38","doi-asserted-by":"publisher","first-page":"114062","DOI":"10.1016\/j.celrep.2024.114062","volume":"43","author":"M Boeren","year":"2024","unstructured":"Boeren M, de Vrij N, Ha MK, Valkiers S, Souquette A, Gielis S et al (2024) Lack of functional TCR-epitope interaction is associated with herpes zoster through reduced downstream T cell activation. Cell Rep 43(4):114062","journal-title":"Cell Rep"},{"issue":"5","key":"5919_CR39","doi-asserted-by":"publisher","first-page":"380","DOI":"10.1038\/nmeth.3364","volume":"12","author":"DA Bolotin","year":"2015","unstructured":"Bolotin DA, Poslavsky S, Mitrophanov I, Shugay M, Mamedov IZ, Putintseva EV et al (2015) MiXCR: Software for comprehensive adaptive immunity profiling. Nat Methods 12(5):380\u2013381","journal-title":"Nat Methods"},{"issue":"12","key":"5919_CR40","doi-asserted-by":"publisher","first-page":"1047","DOI":"10.1093\/bioinformatics\/15.12.1047","volume":"15","author":"V Giudicelli","year":"1999","unstructured":"Giudicelli V, Lefranc M-P (1999) Ontology for immunogenetics: the IMGT-ONTOLOGY. Bioinformatics 15(12):1047\u20131054","journal-title":"Bioinformatics"},{"issue":"1","key":"5919_CR41","doi-asserted-by":"publisher","first-page":"24","DOI":"10.1111\/imr.12666","volume":"284","author":"BD Corrie","year":"2018","unstructured":"Corrie BD, Marthandan N, Zimonja B, Jaglale J, Zhou Y, Barr E et al (2018) iReceptor: a platform for querying and analyzing antibody\/B-cell and T-cell receptor repertoire data across federated repositories. Immunol Rev 284(1):24\u201341","journal-title":"Immunol Rev"},{"issue":"50","key":"5919_CR42","doi-asserted-by":"publisher","first-page":"12704","DOI":"10.1073\/pnas.1809642115","volume":"115","author":"MV Pogorelyy","year":"2018","unstructured":"Pogorelyy MV, Minervina AA, Touzel MP, Sycheva AL, Komech EA, Kovalenko EI et al (2018) Precise tracking of vaccine-responding T cell clones reveals convergent and personalized response in identical twins. PNAS 115(50):12704\u201312709","journal-title":"PNAS"},{"issue":"D1","key":"5919_CR43","doi-asserted-by":"publisher","first-page":"D468","DOI":"10.1093\/nar\/gkaa796","volume":"49","author":"S-Y Chen","year":"2021","unstructured":"Chen S-Y, Yue T, Lei Q, Guo A-Y (2021) TCRdb: a comprehensive database for T-cell receptor sequences with powerful search function. Nucleic Acids Res 49(D1):D468\u2013D474","journal-title":"Nucleic Acids Res"},{"key":"5919_CR44","unstructured":"Jones E, Oliphant T, Peterson P (eds) others. SciPy: Open source scientific tools for Python"},{"key":"5919_CR45","doi-asserted-by":"crossref","unstructured":"Simon S, Wu Z, Cruard J, Vignard V, Fortun A, Khammari A et al (2018) TCR analyses of two Vast and Shared Melanoma Antigen-Specific T Cell repertoires: common and specific features. 9, Frontiers in Immunology","DOI":"10.3389\/fimmu.2018.01962"},{"issue":"7","key":"5919_CR46","doi-asserted-by":"publisher","first-page":"1771","DOI":"10.3390\/cancers14071771","volume":"14","author":"A Aran","year":"2022","unstructured":"Aran A, Garrig\u00f3s L, Curigliano G, Cort\u00e9s J, Mart\u00ed M (2022) Evaluation of the TCR Repertoire as a predictive and prognostic biomarker in Cancer: diversity or clonality? Cancers (Basel) 14(7):1771","journal-title":"Cancers (Basel)"},{"issue":"1","key":"5919_CR47","doi-asserted-by":"publisher","first-page":"356","DOI":"10.1186\/s13046-022-02566-0","volume":"41","author":"N Porciello","year":"2022","unstructured":"Porciello N, Franzese O, D\u2019Ambrosio L, Palermo B, Nistic\u00f2 P (2022) T-cell repertoire diversity: friend or foe for protective antitumor response? J Exp Clin Cancer Res 41(1):356","journal-title":"J Exp Clin Cancer Res"},{"key":"5919_CR48","doi-asserted-by":"crossref","unstructured":"Kidman J, Principe N, Watson M, Lassmann T, Holt RA, Nowak AK et al (2020) Characteristics of TCR Repertoire Associated with successful Immune checkpoint therapy responses. 11, Frontiers in Immunology","DOI":"10.3389\/fimmu.2020.587014"},{"key":"5919_CR49","doi-asserted-by":"crossref","unstructured":"Arnaout RA, Prak ETL, Schwab N, Rubelt F, Arnaout RA, Arora R et al (2021) The future of blood testing is the Immunome. 12, Frontiers in Immunology","DOI":"10.3389\/fimmu.2021.626793"},{"issue":"4","key":"5919_CR50","doi-asserted-by":"publisher","first-page":"bbaa318","DOI":"10.1093\/bib\/bbaa318","volume":"22","author":"P Moris","year":"2021","unstructured":"Moris P, De Pauw J, Postovskaya A, Gielis S, De Neuter N, Bittremieux W et al (2021) Current challenges for unseen-epitope TCR interaction prediction and a new perspective derived from image classification. Brief Bioinform 22(4):bbaa318","journal-title":"Brief Bioinform"},{"key":"5919_CR51","doi-asserted-by":"crossref","unstructured":"Ottensmeier C, Bowers M, Hamid D, Maishman T, Regan S, Wood W et al (2016) Wilms\u2019 tumour antigen 1 immunity via DNA fusion gene vaccination in haematological malignancies by intramuscular injection followed by intramuscular electroporation: a phase II non-randomised clinical trial (WIN). Effic Mech Eval. ;3(3)","DOI":"10.3310\/eme03030"},{"key":"5919_CR52","doi-asserted-by":"publisher","unstructured":"Calis JJA, Maybeno M, Greenbaum JA, Weiskopf D, De Silva AD, Sette A et al (2013) Properties of MHC class I presented peptides that enhance immunogenicity. PLOS Comput Biol [Internet] 9(10):e1003266. https:\/\/doi.org\/10.1371\/journal.pcbi.1003266","DOI":"10.1371\/journal.pcbi.1003266"},{"issue":"4","key":"5919_CR53","doi-asserted-by":"publisher","first-page":"558","DOI":"10.1111\/imm.12472","volume":"145","author":"S Schmied","year":"2015","unstructured":"Schmied S, Gostick E, Price DA, Abken H, Assenmacher M, Richter A (2015) Analysis of the functional WT1-specific T-cell repertoire in healthy donors reveals a discrepancy between CD4\u2009+\u2009and CD8\u2009+\u2009memory formation. Immunology 145(4):558\u2013569","journal-title":"Immunology"},{"issue":"21","key":"5919_CR54","doi-asserted-by":"publisher","first-page":"4504","DOI":"10.1182\/blood.V122.21.4504.4504","volume":"122","author":"S Schmied","year":"2013","unstructured":"Schmied S, Richter A, Assenmacher M, Schmitz J (2013) WT1-Specific T cells exhibiting a non-exhausted, functional phenotype can be generated from the natural repertoire of healthy donors for clinical use. Blood 122(21):4504","journal-title":"Blood"},{"issue":"2","key":"5919_CR55","doi-asserted-by":"publisher","first-page":"106","DOI":"10.1016\/j.humimm.2022.11.003","volume":"84","author":"GW Baek","year":"2023","unstructured":"Baek GW, Yun SO, Park MY, Kang HJ (2023) Generation of antigen-specific T lymphocytes targeting Wilms tumor 1 using activated B cells. Hum Immunol 84(2):106\u2013112","journal-title":"Hum Immunol"},{"issue":"9","key":"5919_CR56","doi-asserted-by":"publisher","first-page":"734","DOI":"10.1158\/2326-6066.CIR-16-0001","volume":"4","author":"A Pasetto","year":"2016","unstructured":"Pasetto A, Gros A, Robbins PF, Deniger DC, Prickett TD, Matus-Nicodemos R et al (2016) Tumor- and Neoantigen-reactive T-cell receptors can be identified based on their frequency in Fresh Tumor. Cancer Immunol Res 4(9):734\u2013743","journal-title":"Cancer Immunol Res"},{"issue":"6","key":"5919_CR57","doi-asserted-by":"publisher","first-page":"1924","DOI":"10.1182\/blood-2007-03-076844","volume":"110","author":"K Rezvani","year":"2007","unstructured":"Rezvani K, Yong ASM, Savani BN, Mielke S, Keyvanfar K, Gostick E et al (2007) Graft-versus-leukemia effects associated with detectable Wilms tumor-1 specific T lymphocytes after allogeneic stem-cell transplantation for acute lymphoblastic leukemia. Blood 110(6):1924\u20131932","journal-title":"Blood"},{"issue":"8","key":"5919_CR58","doi-asserted-by":"publisher","first-page":"2892","DOI":"10.1182\/blood-2003-01-0150","volume":"102","author":"K Rezvani","year":"2003","unstructured":"Rezvani K, Grube M, Brenchley JM, Sconocchia G, Fujiwara H, Price DA et al (2003) Functional leukemia-associated antigen-specific memory CD8\u2009+\u2009T cells exist in healthy individuals and in patients with chronic myelogenous leukemia before and after stem cell transplantation. Blood 102(8):2892\u20132900","journal-title":"Blood"},{"key":"5919_CR59","doi-asserted-by":"crossref","unstructured":"Campillo-Davo D, Flumens D, Lion E (2020) The Quest for the best: how TCR Affinity, Avidity, and functional Avidity Affect TCR-Engineered T-Cell antitumor responses. Cells. ;9(7)","DOI":"10.3390\/cells9071720"},{"issue":"6","key":"5919_CR60","doi-asserted-by":"publisher","first-page":"1359","DOI":"10.1158\/1078-0432.CCR-19-3249","volume":"26","author":"H Zhang","year":"2020","unstructured":"Zhang H, Liu L, Zhang J, Chen J, Ye J, Shukla S et al (2020) Investigation of Antigen-Specific T-Cell receptor clusters in human cancers. Clin Cancer Res 26(6):1359\u20131371","journal-title":"Clin Cancer Res"},{"issue":"1","key":"5919_CR61","doi-asserted-by":"publisher","first-page":"4699","DOI":"10.1038\/s41467-021-25006-7","volume":"12","author":"H Zhang","year":"2021","unstructured":"Zhang H, Zhan X, Li B (2021) GIANA allows computationally-efficient TCR clustering and multi-disease repertoire classification by isometric transformation. Nat Commun 12(1):4699","journal-title":"Nat Commun"},{"issue":"7661","key":"5919_CR62","doi-asserted-by":"publisher","first-page":"94","DOI":"10.1038\/nature22976","volume":"547","author":"J Glanville","year":"2017","unstructured":"Glanville J, Huang H, Nau A, Hatton O, Wagar LE, Rubelt F et al (2017) Identifying specificity groups in the T cell receptor repertoire. Nature 547(7661):94\u201398","journal-title":"Nature"},{"issue":"7661","key":"5919_CR63","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1038\/nature22383","volume":"547","author":"P Dash","year":"2017","unstructured":"Dash P, Fiore-Gartland AJ, Hertz T, Wang GC, Sharma S, Souquette A et al (2017) Quantifiable predictive features define epitope specific T cell receptor repertoires. Nature 547(7661):89\u201393","journal-title":"Nature"},{"key":"5919_CR64","doi-asserted-by":"publisher","first-page":"e77274","DOI":"10.7554\/eLife.77274","volume":"11","author":"MM Goncharov","year":"2022","unstructured":"Goncharov MM, Bryushkova EA, Sharaev NI, Skatova VD, Baryshnikova AM, Sharonov GV et al (2022) Pinpointing the tumor-specific T cells via TCR clusters. Elife 11:e77274","journal-title":"Elife"},{"issue":"1","key":"5919_CR65","doi-asserted-by":"publisher","first-page":"77","DOI":"10.1158\/2326-6066.CIR-18-0136","volume":"7","author":"SA Hogan","year":"2019","unstructured":"Hogan SA, Courtier A, Cheng PF, Jaberg-Bentele NF, Goldinger SM, Manuel M et al (2019) Peripheral blood TCR repertoire profiling may facilitate patient stratification for immunotherapy against Melanoma. Cancer Immunol Res 7(1):77\u201385","journal-title":"Cancer Immunol Res"},{"key":"5919_CR66","doi-asserted-by":"publisher","first-page":"e29244","DOI":"10.4161\/onci.29244","volume":"3","author":"L Robert","year":"2014","unstructured":"Robert L, Harview C, Emerson R, Wang X, Mok S, Homet B et al (2014) Distinct immunological mechanisms of CTLA-4 and PD-1 blockade revealed by analyzing TCR usage in blood lymphocytes. Oncoimmunology 3:e29244","journal-title":"Oncoimmunology"},{"issue":"7","key":"5919_CR67","doi-asserted-by":"publisher","first-page":"2378","DOI":"10.3390\/ijms21072378","volume":"21","author":"I Aversa","year":"2020","unstructured":"Aversa I, Malanga D, Fiume G, Palmieri C (2020) Molecular T-Cell repertoire analysis as source of prognostic and predictive biomarkers for checkpoint blockade immunotherapy. Int J Mol Sci 21(7):2378","journal-title":"Int J Mol Sci"},{"issue":"6236","key":"5919_CR68","doi-asserted-by":"publisher","first-page":"803","DOI":"10.1126\/science.aaa3828","volume":"348","author":"BM Carreno","year":"2015","unstructured":"Carreno BM, Magrini V, Becker-Hapak M, Kaabinejadian S, Hundal J, Petti AA et al (2015) A dendritic cell vaccine increases the breadth and diversity of melanoma neoantigen-specific T cells. Sci (80-) 348(6236):803\u2013808","journal-title":"Sci (80-)"},{"issue":"5","key":"5919_CR69","doi-asserted-by":"publisher","first-page":"1135","DOI":"10.1002\/ijc.31753","volume":"144","author":"S Hofmann","year":"2019","unstructured":"Hofmann S, Schmitt M, G\u00f6tz M, D\u00f6hner H, Wiesneth M, Bunjes D et al (2019) Donor lymphocyte infusion leads to diversity of specific T cell responses and reduces regulatory T cell frequency in clinical responders. Int J cancer 144(5):1135\u20131146","journal-title":"Int J cancer"},{"key":"5919_CR70","doi-asserted-by":"crossref","unstructured":"Sweeney C, Vyas P (2019) The graft-versus-leukemia effect in AML. 9, Front Oncol","DOI":"10.3389\/fonc.2019.01217"},{"issue":"1","key":"5919_CR71","doi-asserted-by":"publisher","first-page":"e000251","DOI":"10.1136\/jitc-2019-000251","volume":"8","author":"H Vroman","year":"2020","unstructured":"Vroman H, Balzaretti G, Belderbos RA, Klarenbeek PL, van Nimwegen M, Bezemer K et al (2020) T cell receptor repertoire characteristics both before and following immunotherapy correlate with clinical response in mesothelioma. J Immunother cancer 8(1):e000251","journal-title":"J Immunother cancer"},{"issue":"1","key":"5919_CR72","doi-asserted-by":"publisher","first-page":"4098","DOI":"10.1038\/s41467-021-24343-x","volume":"12","author":"S Valpione","year":"2021","unstructured":"Valpione S, Mundra PA, Galvani E, Campana LG, Lorigan P, De Rosa F et al (2021) The T cell receptor repertoire of tumor infiltrating T cells is predictive and prognostic for cancer survival. Nat Commun 12(1):4098","journal-title":"Nat Commun"}],"container-title":["Annals of Hematology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00277-024-05919-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00277-024-05919-1\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00277-024-05919-1.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,9,11]],"date-time":"2024-09-11T06:07:24Z","timestamp":1726034844000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s00277-024-05919-1"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,9,11]]},"references-count":72,"alternative-id":["5919"],"URL":"https:\/\/doi.org\/10.1007\/s00277-024-05919-1","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2023.11.26.568717","asserted-by":"object"}]},"ISSN":["0939-5555","1432-0584"],"issn-type":[{"value":"0939-5555","type":"print"},{"value":"1432-0584","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,9,11]]},"assertion":[{"value":"14 March 2024","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"26 July 2024","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 September 2024","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The use of human samples in this study was approved by the Ethics Committee of the Antwerp University Hospital and the University of Antwerp under reference number 15\/19\/210.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"K.L., P.M. and B.O. hold shares in ImmuneWatch BV, an immunoinformatics company.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}]}}