The DOI matches its Crossref record; 89 of the 89 references it cites were found in a registry or an index.
Overview of methodologies for T-cell receptor repertoire analysis
Open accessAbstract
BACKGROUND: The T-cell receptor (TCR), located on the surface of T cells, is responsible for the recognition of the antigen-major histocompatibility complex, leading to the initiation of an inflammatory response. Analysing the TCR repertoire may help to gain a better understanding of the immune system features and of the aetiology and progression of diseases, in particular those with unknown antigenic triggers. The extreme diversity of the TCR repertoire represents a major analytical challenge; this has led to the development of specialized methods which aim to characterize the TCR repertoire in-depth. Currently, next generation sequencing based technologies are most widely employed for the high-throughput analysis of the immune cell repertoire. RESULTS: Here, we report on the latest methodological advancements in the field by describing and comparing the available tools; from the choice of the starting material and library preparation method, to the sequencing technologies and data analysis. Finally, we provide a practical example and our own experience by reporting some exemplary results from a small internal benchmark study, where current approaches from the literature and the market are employed and compared. CONCLUSIONS: Several valid methods for clonotype identification and TCR repertoire analysis exist, however, a gold standard method for the field has not yet been identified. Depending on the purpose of the scientific study, some approaches may be more suitable than others. Finally, due to possible method specific biases, scientists must be careful when comparing results obtained using different methods.
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Cites
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Cited by
Cano-Gamez, K., Soskic, B., Roumeliotis, T. I., So, E., Smyth, D. J., Baldrighi, M., Willé, D., Nakic, N., Esparza-Gordillo, J., Larminie, C. G. C., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-15543-y · Cited by 274
Current and future perspectives of PD-1/PDL-1 blockade in cancer immunotherapy
Makuku, R., Khalili, N., Razi, S., Keshavarz-Fathi, M., & Rezaei, N. (2021) · Journal of Immunology Research · doi:10.1155/2021/6661406 · Cited by 136
TCR sequencing paired with massively parallel 3′ RNA-seq reveals clonotypic T cell signatures
Tu, A. A., Gierahn, T. M., Monian, B., Morgan, D. M., Mehta, N. K., Ruiter, B., Shreffler, W. G., Shalek, A. K., & Love, J. C. (2019) · Nature Immunology · doi:10.1038/s41590-019-0544-5 · Cited by 128
T‐cell receptor and B‐cell receptor repertoire profiling in adaptive immunity
Minervina, A., Pogorelyy, M., & Mamedov, I. (2019) · Transplant International · doi:10.1111/tri.13475 · Cited by 65
Brown, A. J., Snapkov, I., Akbar, R., Pavlović, M., Miho, E., Sandve, G. K., & Greiff, V. (2019) · Molecular Systems Design & Engineering · doi:10.1039/c9me00071b · Cited by 59
Metadata
- Authors
- Rosati, E., Dowds, C. M., Liaskou, E., Henriksen, E. K. K., Karlsen, T. H., & Franke, A.
- Venue
- BMC Biotechnology
- Published
- 2017-07-10
- Volume
- 17
- Issue
- 1
- Pages
- 61-61
- ISSN
- 1472-6750 (ISSN-L)
- OpenAlex
- W2728919089
- Cited by
- 322
- References
- 89
- FWCI
- 10.26
- Type
- journal article
- Language
- en
- Open access
- gold
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