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Title: | Memory CD4(+) T cell receptor repertoire data mining as a tool for identifying cytomegalovirus serostatus | Authors: | De Neuter, Nicolas Bartholomeus, Esther Elias, George Keersmaekers, Nina Suls, Arvid Jansens, Hiide Smits, Evelien HENS, Niel Beutels, Philippe Van Damme, Pierre Mortier, Geert Van Tendeloo, Viggo Laukens, Kris Meysman, Pieter OGUNJIMI, Benson |
Issue Date: | 2019 | Publisher: | NATURE PUBLISHING GROUP | Source: | GENES AND IMMUNITY, 20(3), p. 255-260 | Abstract: | Pathogens of past and current infections have been identified directly by means of PCR or indirectly by measuring a specific immune response (e.g., antibody titration). Using a novel approach, Emerson and colleagues showed that the cytomegalovirus serostatus can also be accurately determined by using a T cell receptor repertoire data mining approach. In this study, we have sequenced the CD4(+) memory T cell receptor repertoire of a Belgian cohort with known cytomegalovirus serostatus. A random forest classifier was trained on the CMV specific T cell receptor repertoire signature and used to classify individuals in the Belgian cohort. This study shows that the novel approach can be reliably replicated with an equivalent performance as that reported by Emerson and colleagues. Additionally, it provides evidence that the T cell receptor repertoire signature is to a large extent present in the CD4(+) memory repertoire. | Notes: | [De Neuter, Nicolas; Laukens, Kris; Meysman, Pieter] Univ Antwerp, Dept Math & Comp Sci, Adrem Data Lab, Antwerp, Belgium. [De Neuter, Nicolas; Laukens, Kris; Meysman, Pieter] Univ Antwerp, Biomed Informat Res Network Antwerp Biomina, Antwerp, Belgium. [De Neuter, Nicolas; Bartholomeus, Esther; Elias, George; Keersmaekers, Nina; Suls, Arvid; Smits, Evelien; Hens, Niel; Beutels, Philippe; Van Damme, Pierre; Mortier, Geert; Van Tendeloo, Viggo; Laukens, Kris; Meysman, Pieter; Ogunjim, Benson] Univ Antwerp, AUDACIS, Antwerp, Belgium. [Bartholomeus, Esther; Suls, Arvid; Mortier, Geert] Univ Antwerp, Antwerp Univ Hosp, Ctr Med Genet, Edegem, Belgium. [Elias, George; Smits, Evelien; Van Tendeloo, Viggo] Univ Antwerp, Vaccine & Infect Dis Inst VAXINFECTIO, LEH, Antwerp, Belgium. [Keersmaekers, Nina; Hens, Niel; Beutels, Philippe; Ogunjim, Benson] Univ Antwerp, Vaccine & Infect Dis Inst VAXINFECTIO, Ctr Hlth Econ Res & Modeling Infect Dis CHERMID, Antwerp, Belgium. [Jansens, Hiide] Antwerp Univ Hosp, Dept Lab Med, Edegem, Belgium. [Smits, Evelien] Antwerp Univ Hosp, Ctr Cell Therapy & Regenerat Med, Edegem, Belgium. [Smits, Evelien] Univ Antwerp, Ctr Oncol Res Antwerp, Antwerp, Belgium. [Hens, Niel] Hasselt Univ, Interuniv Inst Biostat & Stat Bioinformat, Diepenbeek, Belgium. [Hens, Niel; Van Damme, Pierre] Univ Antwerp, Vaccine & Infect Dis Inst VAXINFECTIO, CEV, Antwerp, Belgium. [Ogunjim, Benson] Antwerp Univ Hosp, Dept Paediat, Edegem, Belgium. | Keywords: | Genetics & Heredity; Immunology | Document URI: | http://hdl.handle.net/1942/30203 | ISSN: | 1466-4879 | e-ISSN: | 1476-5470 | DOI: | 10.1038/s41435-018-0035-y | ISI #: | 000462596700008 | Rights: | Macmillan Publishers Ltd., part of Springer Nature 2018 | Category: | A1 | Type: | Journal Contribution | Validations: | ecoom 2020 |
Appears in Collections: | Research publications |
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s41435-018-0035-y.pdf Restricted Access | Published version | 1.1 MB | Adobe PDF | View/Open Request a copy |
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