[HTML][HTML] Overview of methodologies for T-cell receptor repertoire analysis

E Rosati, CM Dowds, E Liaskou, EKK Henriksen… - BMC …, 2017 - Springer
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 …

Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases

P Barennes, V Quiniou, M Shugay, ES Egorov… - Nature …, 2021 - nature.com
Monitoring the T cell receptor (TCR) repertoire in health and disease can provide key
insights into adaptive immune responses, but the accuracy of current TCR sequencing …

[HTML][HTML] T-cell repertoire analysis and metrics of diversity and clonality

J Chiffelle, R Genolet, MAS Perez, G Coukos… - Current opinion in …, 2020 - Elsevier
Highlights•Immune fitness in health and disease depends notably on the diversity of cellular
repertoires.•Single-cell sequencing is fostering the understanding of clonal diversity of T-cell …

[HTML][HTML] Recent advances in T-cell receptor repertoire analysis: bridging the gap with multimodal single-cell RNA sequencing

S Valkiers, N de Vrij, S Gielis, S Verbandt, B Ogunjimi… - ImmunoInformatics, 2022 - Elsevier
T cells exercise a multitude of functions such as cytotoxicity, secretion of immunomodulating
cytokines or regulation of tolerance, collectively resulting in an effective control of immune …

[HTML][HTML] tcR: an R package for T cell receptor repertoire advanced data analysis

VI Nazarov, MV Pogorelyy, EA Komech, IV Zvyagin… - BMC …, 2015 - Springer
Abstract Background The Immunoglobulins (IG) and the T cell receptors (TR) play the key
role in antigen recognition during the adaptive immune response. Recent progress in next …

[HTML][HTML] Single cell T cell receptor sequencing: techniques and future challenges

M De Simone, G Rossetti, M Pagani - Frontiers in Immunology, 2018 - frontiersin.org
The peculiarity of T cell is their ability to recognize an infinite range of self and foreign
antigens. This ability is achieved during thymic development through a complex molecular …

[HTML][HTML] Detecting T cell receptors involved in immune responses from single repertoire snapshots

MV Pogorelyy, AA Minervina, M Shugay… - PLoS …, 2019 - journals.plos.org
Hypervariable T cell receptors (TCRs) play a key role in adaptive immunity, recognizing a
vast diversity of pathogen-derived antigens. Our ability to extract clinically relevant …

[HTML][HTML] Detection of enriched T cell epitope specificity in full T cell receptor sequence repertoires

S Gielis, P Moris, W Bittremieux, N De Neuter… - Frontiers in …, 2019 - frontiersin.org
High-throughput T cell receptor (TCR) sequencing allows the characterization of an
individual's TCR repertoire and directly queries their immune state. However, it remains a …

McPAS-TCR: a manually curated catalogue of pathology-associated T cell receptor sequences

N Tickotsky, T Sagiv, J Prilusky, E Shifrut… - …, 2017 - academic.oup.com
Motivation While growing numbers of T cell receptor (TCR) repertoires are being mapped by
high-throughput sequencing, existing methods do not allow for computationally connecting a …

High-throughput sequencing of the T-cell receptor repertoire: pitfalls and opportunities

JM Heather, M Ismail, T Oakes… - Briefings in …, 2018 - academic.oup.com
T-cell specificity is determined by the T-cell receptor, a heterodimeric protein coded for by an
extremely diverse set of genes produced by imprecise somatic gene recombination …