Literature DB >> 28341036

Advanced Methodologies in High-Throughput Sequencing of Immune Repertoires.

Simon Friedensohn1, Tarik A Khan2, Sai T Reddy3.   

Abstract

In recent years, major efforts have been made to develop sophisticated experimental and bioinformatic workflows for sequencing adaptive immune repertoires. The immunological insight gained has been applied to fields as varied as lymphocyte biology, immunodiagnostics, vaccines, cancer immunotherapy, and antibody engineering. In this review, we provide a detailed overview of these advanced methodologies, focusing specifically on strategies to reduce sequencing errors and bias and to achieve high-throughput pairing of variable regions (e.g., heavy-light or alpha-beta chains). In addition, we highlight recent technologies for single-cell transcriptome sequencing that can be integrated with immune repertoires. Finally, we provide a perspective on advanced immune repertoire sequencing and its ability to impact basic immunology, biopharmaceutical drug discovery and development, and cancer immunotherapy. Copyright Â
© 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  B cell receptor; T cell receptor; antibody; immunoglobulin; next-generation sequencing

Mesh:

Substances:

Year:  2016        PMID: 28341036     DOI: 10.1016/j.tibtech.2016.09.010

Source DB:  PubMed          Journal:  Trends Biotechnol        ISSN: 0167-7799            Impact factor:   19.536


  47 in total

1.  Filtering Next-Generation Sequencing of the Ig Gene Repertoire Data Using Antibody Structural Information.

Authors:  Aleksandr Kovaltsuk; Konrad Krawczyk; Sebastian Kelm; James Snowden; Charlotte M Deane
Journal:  J Immunol       Date:  2018-11-05       Impact factor: 5.422

2.  Immunology: The patterns of T-cell target recognition.

Authors:  Sai T Reddy
Journal:  Nature       Date:  2017-06-21       Impact factor: 49.962

3.  Profiling the pattern of the human T-cell receptor γδ complementary determinant region 3 repertoire in patients with lung carcinoma via high-throughput sequencing analysis.

Authors:  Hui Chen; Mingjin Zou; Da Teng; Yu Hu; Jianmin Zhang; Wei He
Journal:  Cell Mol Immunol       Date:  2018-02-05       Impact factor: 11.530

4.  Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data.

Authors:  Florian Rubelt; Christian E Busse; Syed Ahmad Chan Bukhari; Jean-Philippe Bürckert; Encarnita Mariotti-Ferrandiz; Lindsay G Cowell; Corey T Watson; Nishanth Marthandan; William J Faison; Uri Hershberg; Uri Laserson; Brian D Corrie; Mark M Davis; Bjoern Peters; Marie-Paule Lefranc; Jamie K Scott; Felix Breden; Eline T Luning Prak; Steven H Kleinstein
Journal:  Nat Immunol       Date:  2017-11-16       Impact factor: 25.606

Review 5.  Germinal center responses to complex antigens.

Authors:  Joel Finney; Chen-Hao Yeh; Garnett Kelsoe; Masayuki Kuraoka
Journal:  Immunol Rev       Date:  2018-07       Impact factor: 12.988

6.  Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity.

Authors:  William S DeWitt; Anajane Smith; Gary Schoch; John A Hansen; Frederick A Matsen; Philip Bradley
Journal:  Elife       Date:  2018-08-28       Impact factor: 8.140

Review 7.  Ushering in Integrated T Cell Repertoire Profiling in Cancer.

Authors:  Ning Jiang; Alexandra A Schonnesen; Ke-Yue Ma
Journal:  Trends Cancer       Date:  2018-12-26

8.  Computational Evaluation of B-Cell Clone Sizes in Bulk Populations.

Authors:  Aaron M Rosenfeld; Wenzhao Meng; Dora Y Chen; Bochao Zhang; Tomer Granot; Donna L Farber; Uri Hershberg; Eline T Luning Prak
Journal:  Front Immunol       Date:  2018-06-29       Impact factor: 7.561

Review 9.  Understanding and measuring human B-cell tolerance and its breakdown in autoimmune disease.

Authors:  Kevin S Cashman; Scott A Jenks; Matthew C Woodruff; Deepak Tomar; Christopher M Tipton; Christopher D Scharer; F Eun-Hyung Lee; Jeremy M Boss; Iñaki Sanz
Journal:  Immunol Rev       Date:  2019-11-22       Impact factor: 12.988

Review 10.  AllergoOncology: Opposite outcomes of immune tolerance in allergy and cancer.

Authors:  E Jensen-Jarolim; H J Bax; R Bianchini; S Crescioli; T R Daniels-Wells; D Dombrowicz; E Fiebiger; H J Gould; S Irshad; J Janda; D H Josephs; F Levi-Schaffer; L O'Mahony; G Pellizzari; M L Penichet; F Redegeld; F Roth-Walter; J Singer; E Untersmayr; L Vangelista; S N Karagiannis
Journal:  Allergy       Date:  2017-10-05       Impact factor: 13.146

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