Predicting class switch recombination in B‐cells from antibody repertoire data
Statistical and machine learning methods have proved useful in many areas of immunology. In this paper, we address for the first time the problem of predicting the occurrence of class switch recombination (CSR) in B‐cells, a problem of interest in understanding antibody response under immunological...
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| Veröffentlicht in: | Biometrical journal 2024-06, Vol.66 (4), p.e2300171-n/a |
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| container_title | Biometrical journal |
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| creator | Servius, Lutecia Pigoli, Davide Ng, Joseph Fraternali, Franca |
| description | Statistical and machine learning methods have proved useful in many areas of immunology. In this paper, we address for the first time the problem of predicting the occurrence of class switch recombination (CSR) in B‐cells, a problem of interest in understanding antibody response under immunological challenges. We propose a framework to analyze antibody repertoire data, based on clonal (CG) group representation in a way that allows us to predict CSR events using CG level features as input. We assess and compare the performance of several predicting models (logistic regression, LASSO logistic regression, random forest, and support vector machine) in carrying out this task. The proposed approach can obtain an unweighted average recall of 71%$71\%$ with models based on variable region descriptors and measures of CG diversity during an immune challenge and, most notably, before an immune challenge. |
| doi_str_mv | 10.1002/bimj.202300171 |
| format | Article |
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| subjects | Animals Antibodies Antibodies - immunology Antibody response B-Lymphocytes - immunology balanced accuracy Biometry - methods Class switching clonal groups Humans immune responses Immune system Immunoglobulin Class Switching Immunology Machine learning Mice Performance prediction predictive models Recombination Recombination, Genetic Regression analysis Statistical analysis Support vector machines Variable region |
| title | Predicting class switch recombination in B‐cells from antibody repertoire data |
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