Article
Medicine, General & Internal
Chenyang Lu, Xuenan Pi, Wangdong Xu, Pingying Qing, Honghu Tang, Yanhong Li, Yi Zhao, Xiao Liu, Huairong Tang, Yi Liu
Summary: This study dynamically assessed the characteristics of TCR diversity in primary Sjogren's syndrome (SS) patients and found that they had lower TCR diversity but a higher frequency of public clones. TCR variations associated with SS were correlated with dental caries, thrombocytopenia, hepatocholangeitis, and other factors. The TCR abnormalities remained during follow-up, and the sensitive subgroup showed increased TCR diversity after treatment.
Article
Immunology
Jing Xu, Xiao-xiao Li, Na Yuan, Chao Li, Jin-gang Yang, Li-ming Cheng, Zhong-xin Lu, Hong-yan Hou, Bo Zhang, Hui Hu, Yu Qian, Xin-xuan Liu, Guo-chao Li, Yue-dan Wang, Ming Chu, Chao-ran Dong, Fan Liu, Qing-gang Ge, Yue-jin Yang
Summary: In this study, T cell receptor (TCR) profiles in the blood of 192 COVID-19 patients and 81 healthy controls were analyzed using high-throughput TCRβ sequencing. The study found that COVID-19 patients had decreased diversity of TCR clonotypes compared to healthy controls, but the overall abundance of dominant clones increased with disease severity. Significant differences in genomic rearrangement of variable, joining, and VJ pairings were also identified between patient groups. The study also found that the SARS-CoV-2-associated TCRs identified could accurately differentiate COVID-19 patients from healthy controls and distinguish those with moderate symptoms from those with more severe forms of the disease. These findings indicate that TCR repertoires can be informative biomarkers for monitoring COVID-19 progression.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Immunology
Augustina Frimpong, Michael Fokuo Ofori, Abdoelnaser M. Degoot, Kwadwo Asamoah Kusi, Buri Gershom, Jacob Quartey, Eric Kyei-Baafour, Nhi Nguyen, Wilfred Ndifon
Summary: This study conducted a detailed comparative analysis of the T cell repertoire in African children with and without clinical malaria, revealing that children with symptomatic malaria have lower TCR diversity and frequency of shared TCR sequences. Exposure to P. falciparum antigens during malaria disrupts the adaptive immune response.
FRONTIERS IN IMMUNOLOGY
(2022)
Review
Immunology
Guangyao Tian, Mingqian Li, Guoyue Lv
Summary: This article reviews the recent advances in TCR sequencing techniques and computational tools, as well as the recent discovery in overall TCR profile and antigen-specific T cells tracking in transplantation. The challenges and potential of using TCR sequencing-based assays to profile alloreactive TCR repertoire as the fingerprint for immune monitoring and prediction of rejection and tolerance are further discussed.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Immunology
Mei Xia, Azra Blazevic, Andrew Fiore-Gartland, Daniel F. Hoft
Summary: In this study, the effects of BCG vaccination on γδ T cell responses were investigated. TCR repertoire sequencing revealed minimal changes in the diversity and distribution of TCR clones after vaccination, but identified specific clonotypes that significantly expanded or contracted. These findings provide new insights into the role of γδ T cells in Mycobacterium tuberculosis immunity.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Kerry A. Mullan, Justin B. Zhang, Claerwen M. Jones, Shawn J. R. Goh, Jerico Revote, Patricia T. Illing, Anthony W. Purcell, Nicole L. La Gruta, Chen Li, Nicole A. Mifsud
Summary: This article introduces a web tool called "TCR_Explore" that helps users analyze T cell receptor data from both Sanger sequencing and next generation sequencing platforms. The tool includes automated quality control steps for Sanger sequencing and allows for the generation of publication-ready figures for different sequencing platforms. Users can interact with the web application at https://tcr-explore.erc.monash.edu.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2023)
Article
Medicine, Research & Experimental
Wei Zhang, Qian Zhang, Chao Zhu, Zhiyuan Shi, Chen Shao, Yujie Chen, Nan Wang, Yanxia Jiang, Qing Liang, Kejia Wang
Summary: This study revealed diminished T-cell infiltration and increased T-cell receptor immune repertoire diversity in clear cell renal cell cancer (ccRCC). Furthermore, Vimentin expression in ccRCC tissue was positively correlated with the presence of positive T-cell markers. The immune repertoire sequencing results showed increased diversity in the T-cell receptor repertoire in ccRCC.
JOURNAL OF TRANSLATIONAL MEDICINE
(2022)
Review
Oncology
Nicla Porciello, Ornella Franzese, Lorenzo D'Ambrosio, Belinda Palermo, Paola Nistico
Summary: Profiling the T-cell receptor repertoire allows for the investigation of antitumor immune response. By tracking the spatiotemporal variation of T-cell populations, the key cells responsible for tumor eradication can be identified. Furthermore, improvements in T-cell sequencing provide new opportunities and challenges for research.
JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH
(2022)
Article
Immunology
Sung Noh Hong, Joo-Young Park, So-Yun Yang, Chansu Lee, Young-Ho Kim, Je-Gun Joung
Summary: This study found that the diversity of the TCR repertoire is reduced in inflamed mucosa of CD patients, which may be associated with intestinal inflammation.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Multidisciplinary Sciences
Hagit Philip, Tom Snir, Miri Gordin, Mikhail Shugay, Alona Zilberberg, Sol Efroni
Summary: This study quantified the dynamics of the T cell receptor repertoire during treatment with anti-CTLA-4 in a mouse model for colorectal cancer, revealing that the response to treatment is closely connected to shared and public parts of the T cell repertoire, dominated by specific motifs and time-dependent behaviors of specific TCR sequences. The research also emphasizes the importance of temporal analyses of the immune response, showing that a specific time point might be useful in assessing the true response to treatment.
Article
Immunology
Jennifer Massey, Katherine Jackson, Mandeep Singh, Brendan Hughes, Barbara Withers, Carole Ford, Melissa Khoo, Kevin Hendrawan, John Zaunders, Benedicte Charmeteau-De Muylder, Remi Cheynier, Fabio Luciani, David Ma, John Moore, Ian Sutton
Summary: This study investigates T cell reconstitution in highly active MS patients for 36 months after AHSCT. The results show that AHSCT induces significant changes in the dominant T cell clones of CD4+ and CD8+ memory T cells. After lymphopenia-induced homeostatic proliferation, clonal attrition occurs. Recovery of thymically-derived CD4 naive T cell repertoire begins at 12 months and continues, but the diversity of the naive populations does not increase compared to baseline, indicating that the principal mechanism for durable remission from MS after AHSCT relates to depletion of putative auto-reactive clones.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Medicine, Research & Experimental
Rebecca Elyanow, Thomas M. Snyder, Sudeb C. Dalai, Rachel M. Gittelman, Jim Boonyaratanakornkit, Anna Wald, Stacy Selke, Mark H. Wener, Chihiro Morishima, Alexander L. Greninger, Michael Gale, Tien-Ying Hsiang, Lichen Jing, Michael R. Holbrook, Ian M. Kaplan, H. Jabran Zahid, Damon H. May, Jonathan M. Carlson, Lance Baldo, Thomas Manley, Harlan S. Robins, David M. Koelle
Summary: This study suggests that measuring T cell responses can provide reliable assessment of past SARS-CoV-2 infection and protective immunity. T cell responses showed significant correlations with neutralizing antibody titers and disease severity indicators. T cell testing demonstrated high sensitivity even after 6 months of infection, outperforming serology tests in identifying prior infection, especially in individuals with milder disease.
Review
Cell Biology
Mahima Arunkumar, Christina E. Zielinski
Summary: In recent years, there has been rapid growth in the application of information technology to biological data, especially in the field of immunology, resulting in significant advances. T-cell receptor repertoire analysis requires highly sophisticated bioinformatics tools, which have recently emerged for various aspects of immunological research, posing a challenge for researchers in choosing the right approach.
Article
Immunology
Sabrina Pollastro, Marie de Bourayne, Giulia Balzaretti, Aldo Jongejan, Barbera D. C. van Schaik, Ilse T. G. Niewold, Antoine H. C. van Kampen, Bernard Maillere, Niek de Vries
Summary: The study demonstrated a new method to identify and characterize antigen-responsive T cell clones using high-throughput T-cell receptor repertoire sequencing. By combining datasets and a novel analysis protocol, the researchers successfully explored the dynamics of T cell clonal expansion and antigen response characteristics.
FRONTIERS IN IMMUNOLOGY
(2021)
Review
Biology
Johannes Truck, Anne Eugster, Pierre Barennes, Christopher M. Tipton, Eline T. Luning Prak, Davide Bagnara, Cinque Soto, Jacob S. Sherkow, Aimee S. Payne, Marie-Paule Lefranc, Andrew Farmer, Magnolia Bostick, Encarnita Mariotti-Ferrandiz
Summary: The use of adaptive immune receptor repertoire sequencing (AIRR-seq) has provided new insights into the immune system but also comes with challenges. The AIRR Community's Biological Resources Working Group conducted a survey to understand the need for standards and controls in generating and annotating AIRR-seq data, and offered recommendations for developing AIRR-seq standards and controls based on the survey results.
Article
Biochemistry & Molecular Biology
Su-Dong Liu, Shi-Meng Zhang, Hui Wang, Jian-Chun He, Xiao-Fan Yang, Xia-Lin Du, Li Ma
Article
Cell Biology
Su-Dong Liu, Jin Su, Shi-Meng Zhang, Hai-Ping Dong, Hui Wang, Wei Luo, Qian Wen, Jian-Chun He, Xiao-Fan Yang, Li Ma
JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
(2016)
Article
Cell Biology
Chao-Ying Zhou, Qian Wen, Xiao-Jie Chen, Rui-Ning Wang, Wen-Ting He, Shi-Meng Zhang, Xia-Lin Du, Li Ma
JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
(2016)
Article
Immunology
Jinli Wang, Ruining Wang, Jiahui Yang, Xiaofan Yang, Shengfeng Hu, Hui Wang, Chaoying Zhou, Wenjing Xiong, Qian Wen, Li Ma
INTERNATIONAL IMMUNOPHARMACOLOGY
(2017)
Article
Multidisciplinary Sciences
Jinli Wang, Ruining Wang, Hui Wang, Xiaofan Yang, Jiahui Yang, Wenjing Xiong, Qian Wen, Li Ma
SCIENTIFIC REPORTS
(2017)
Article
Immunology
Chao-Ying Zhou, Rui-Ning Wang, Qian Wen, Wen-Ting He, Shi-Meng Zhang, Xia-Lin Du, Jia-Hui Yang, Li Ma
FRONTIERS IN IMMUNOLOGY
(2017)
Article
Medicine, General & Internal
Shengfeng Hu, Wenting He, Xialin Du, Jiahui Yang, Qian Wen, Xiao-Ping Zhong, Li Ma
Article
Biochemistry & Molecular Biology
Qian Wen, Shimeng Zhang, Xialin Du, Ruining Wang, Yanfen Li, Honglin Liu, Shengfeng Hu, Chaoying Zhou, Xinying Zhou, Li Ma
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2018)
Article
Immunology
Wenjing Xiong, Qian Wen, Xialin Du, Jinli Wang, Wenting He, Ruining Wang, Shengfeng Hu, Xinying Zhou, Jiahui Yang, Yuchi Gao, Li Ma
JOURNAL OF INFECTIOUS DISEASES
(2018)
Article
Immunology
Wenting He, Shengfeng Hu, Xialin Du, Qian Wen, Xiao-Ping Zhong, Xinying Zhou, Chaoying Zhou, Wenjing Xiong, Yuchi Gao, Shimeng Zhang, Ruining Wang, Jiahui Yang, Li Ma
FRONTIERS IN IMMUNOLOGY
(2018)
Article
Microbiology
Shengfeng Hu, Xialin Du, Yulan Huang, Yuling Fu, Yalong Yang, Xiaoxia Zhan, Wenting He, Qian Wen, Xinying Zhou, Chaoying Zhou, Xiao-Ping Zhong, Jiahui Yang, Wenjing Xiong, Ruining Wang, Yuchi Gao, Li Ma
Article
Immunology
Shengfeng Hu, Wenting He, Xialin Du, Yulan Huang, Yuling Fu, Yalong Yang, Chuxuan Hu, Silin Li, Qinshu Wang, Qian Wen, Xinying Zhou, Chaoying Zhou, Xiao-Ping Zhong, Li Ma
FRONTIERS IN IMMUNOLOGY
(2018)
Article
Oncology
Rui-Ning Wang, Qian Wen, Wen-Ting He, Jia-Hui Yang, Chao-Ying Zhou, Wen-Jing Xiong, Li Ma
MOLECULAR MEDICINE REPORTS
(2019)
Article
Biochemistry & Molecular Biology
Xinying Zhou, Jiahui Yang, Zelin Zhang, Lijie Zhang, Bo Zhu, Linmiao Lie, Yubin Huang, Rui Ma, Chaoying Zhou, Shengfeng Hu, Qian Wen, Li Ma
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2019)
Article
Cell Biology
Hui Wang, Jinli Wang, Jiahui Yang, Xiaofan Yang, Jianchun He, Ruining Wang, Sudong Liu, Lin Zhou, Li Ma