Literature DB >> 35090787

TCR-sequencing in cancer and autoimmunity: barcodes and beyond.

Kristen E Pauken1, Kaitlyn A Lagattuta2, Benjamin Y Lu3, Liliana E Lucca4, Adil I Daud5, David A Hafler6, Harriet M Kluger7, Soumya Raychaudhuri8, Arlene H Sharpe9.   

Abstract

The T cell receptor (TCR) endows T cells with antigen specificity and is central to nearly all aspects of T cell function. Each naïve T cell has a unique TCR sequence that is stably maintained during cell division. In this way, the TCR serves as a molecular barcode that tracks processes such as migration, differentiation, and proliferation of T cells. Recent technological advances have enabled sequencing of the TCR from single cells alongside deep molecular phenotypes on an unprecedented scale. In this review, we discuss strengths and limitations of TCR sequences as molecular barcodes and their application to study immune responses following Programmed Death-1 (PD-1) blockade in cancer. Additionally, we consider applications of TCR data beyond use as a barcode.
Copyright © 2022 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  PD-1 immunotherapy; T cell; TCR sequencing; cancer; molecular barcode; single cell sequencing

Mesh:

Substances:

Year:  2022        PMID: 35090787      PMCID: PMC8882139          DOI: 10.1016/j.it.2022.01.002

Source DB:  PubMed          Journal:  Trends Immunol        ISSN: 1471-4906            Impact factor:   16.687


  131 in total

1.  Biophysicochemical Motifs in T-cell Receptor Sequences Distinguish Repertoires from Tumor-Infiltrating Lymphocyte and Adjacent Healthy Tissue.

Authors:  Jared Ostmeyer; Scott Christley; Inimary T Toby; Lindsay G Cowell
Journal:  Cancer Res       Date:  2019-01-08       Impact factor: 12.701

2.  Bystander CD8+ T cells are abundant and phenotypically distinct in human tumour infiltrates.

Authors:  Yannick Simoni; Etienne Becht; Michael Fehlings; Chiew Yee Loh; Si-Lin Koo; Karen Wei Weng Teng; Joe Poh Sheng Yeong; Rahul Nahar; Tong Zhang; Hassen Kared; Kaibo Duan; Nicholas Ang; Michael Poidinger; Yin Yeng Lee; Anis Larbi; Alexis J Khng; Emile Tan; Cherylin Fu; Ronnie Mathew; Melissa Teo; Wan Teck Lim; Chee Keong Toh; Boon-Hean Ong; Tina Koh; Axel M Hillmer; Angela Takano; Tony Kiat Hon Lim; Eng Huat Tan; Weiwei Zhai; Daniel S W Tan; Iain Beehuat Tan; Evan W Newell
Journal:  Nature       Date:  2018-05-16       Impact factor: 49.962

3.  Selective accumulation of related CD4+ T cell clones in the synovial fluid of patients with rheumatoid arthritis.

Authors:  C C Striebich; M T Falta; Y Wang; J Bill; B L Kotzin
Journal:  J Immunol       Date:  1998-10-15       Impact factor: 5.422

4.  Single naive CD4+ T cells from a diverse repertoire produce different effector cell types during infection.

Authors:  Noah J Tubo; Antonio J Pagán; Justin J Taylor; Ryan W Nelson; Jonathan L Linehan; James M Ertelt; Eric S Huseby; Sing Sing Way; Marc K Jenkins
Journal:  Cell       Date:  2013-05-09       Impact factor: 41.582

5.  Combinatorial prediction of marker panels from single-cell transcriptomic data.

Authors:  Conor Delaney; Alexandra Schnell; Louis V Cammarata; Aaron Yao-Smith; Aviv Regev; Vijay K Kuchroo; Meromit Singer
Journal:  Mol Syst Biol       Date:  2019-10       Impact factor: 11.429

6.  Multiple sclerosis: brain-infiltrating CD8+ T cells persist as clonal expansions in the cerebrospinal fluid and blood.

Authors:  Christian Skulina; Stephan Schmidt; Klaus Dornmair; Holger Babbe; Axel Roers; Klaus Rajewsky; Hartmut Wekerle; Reinhard Hohlfeld; Norbert Goebels
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-24       Impact factor: 11.205

7.  A single autoimmune T cell receptor recognizes more than a million different peptides.

Authors:  Linda Wooldridge; Julia Ekeruche-Makinde; Hugo A van den Berg; Anna Skowera; John J Miles; Mai Ping Tan; Garry Dolton; Mathew Clement; Sian Llewellyn-Lacey; David A Price; Mark Peakman; Andrew K Sewell
Journal:  J Biol Chem       Date:  2011-11-18       Impact factor: 5.157

8.  Origin and differentiation of human memory CD8 T cells after vaccination.

Authors:  Rama S Akondy; Mark Fitch; Srilatha Edupuganti; Shu Yang; Haydn T Kissick; Kelvin W Li; Ben A Youngblood; Hossam A Abdelsamed; Donald J McGuire; Kristen W Cohen; Gabriela Alexe; Shashi Nagar; Megan M McCausland; Satish Gupta; Pramila Tata; W Nicholas Haining; M Juliana McElrath; David Zhang; Bin Hu; William J Greenleaf; Jorg J Goronzy; Mark J Mulligan; Marc Hellerstein; Rafi Ahmed
Journal:  Nature       Date:  2017-12-13       Impact factor: 69.504

9.  Single-cell sequencing reveals clonal expansions of pro-inflammatory synovial CD8 T cells expressing tissue-homing receptors in psoriatic arthritis.

Authors:  Paul Bowness; Sam Behjati; M Hussein Al-Mossawi; Frank Penkava; Martin Del Castillo Velasco-Herrera; Matthew D Young; Nicole Yager; Lilian N Nwosu; Arthur G Pratt; Alicia Lledo Lara; Charlotte Guzzo; Ash Maroof; Lira Mamanova; Suzanne Cole; Mirjana Efremova; Davide Simone; Andrew Filer; Chrysothemis C Brown; Andrew L Croxford; John D Isaacs; Sarah Teichmann
Journal:  Nat Commun       Date:  2020-09-21       Impact factor: 14.919

10.  Prediction of Specific TCR-Peptide Binding From Large Dictionaries of TCR-Peptide Pairs.

Authors:  Ido Springer; Hanan Besser; Nili Tickotsky-Moskovitz; Shirit Dvorkin; Yoram Louzoun
Journal:  Front Immunol       Date:  2020-08-25       Impact factor: 7.561

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  4 in total

Review 1.  T-Cell Receptor Repertoire Sequencing and Its Applications: Focus on Infectious Diseases and Cancer.

Authors:  Lucia Mazzotti; Anna Gaimari; Sara Bravaccini; Roberta Maltoni; Claudio Cerchione; Manel Juan; Europa Azucena-Gonzalez Navarro; Anna Pasetto; Daniela Nascimento Silva; Valentina Ancarani; Vittorio Sambri; Luana Calabrò; Giovanni Martinelli; Massimiliano Mazza
Journal:  Int J Mol Sci       Date:  2022-08-02       Impact factor: 6.208

2.  Two types of human TCR differentially regulate reactivity to self and non-self antigens.

Authors:  Assya Trofimov; Philippe Brouillard; Jean-David Larouche; Jonathan Séguin; Jean-Philippe Laverdure; Ann Brasey; Gregory Ehx; Denis-Claude Roy; Lambert Busque; Silvy Lachance; Sébastien Lemieux; Claude Perreault
Journal:  iScience       Date:  2022-08-17

Review 3.  T cell receptor repertoire analysis in HTLV-1-associated diseases.

Authors:  Annaliese Clauze; Yoshimi Enose-Akahata; Steven Jacobson
Journal:  Front Immunol       Date:  2022-09-15       Impact factor: 8.786

4.  Comprehensive analysis of T cell receptor repertoire in patients with KRAS mutant non-small cell lung cancer.

Authors:  Yadong Wang; Ling Peng; Ming Zhao; Yuanyuan Xiong; Jianchao Xue; Bowen Li; Zhicheng Huang; Xinyu Liu; Xiaoying Yang; Yang Song; Zhongxing Bing; Chao Guo; Zhenhuan Tian; Chao Gao; Lei Cao; Zhili Cao; Ji Li; Xu Jiang; Xiaoyan Si; Li Zhang; Xiaoguang Li; Zhibo Zheng; Mengmeng Song; Rongrong Chen; Wan-Teck Lim; Alberto Pavan; Atocha Romero; Naixin Liang; Huaxia Yang; Shanqing Li
Journal:  Transl Lung Cancer Res       Date:  2022-09
  4 in total

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