Literature DB >> 30796351

Revolutionizing immunology with single-cell RNA sequencing.

Haide Chen1,2,3, Fang Ye1, Guoji Guo4,5,6,7,8.   

Abstract

The immune system is composed of a complex hierarchy of cell types that protect the organism against disease and maintain homeostasis. Identifying heterogeneity of immune cells is the key to understanding the immune system. Advanced single-cell RNA sequencing (scRNA-seq) technologies are revolutionizing our ability to study immunology. By measuring transcriptomes at the single-cell level, scRNA-seq enables identification of cellular heterogeneity in far greater detail than conventional methods. In this review, we introduce the existing scRNA-seq technologies and present their strengths and weaknesses. We also discuss potential applications and future innovations of scRNA-seq in immunology.

Mesh:

Year:  2019        PMID: 30796351      PMCID: PMC6460502          DOI: 10.1038/s41423-019-0214-4

Source DB:  PubMed          Journal:  Cell Mol Immunol        ISSN: 1672-7681            Impact factor:   11.530


  100 in total

1.  EPCR expression marks UM171-expanded CD34+ cord blood stem cells.

Authors:  Iman Fares; Jalila Chagraoui; Bernhard Lehnertz; Tara MacRae; Nadine Mayotte; Elisa Tomellini; Léo Aubert; Philippe P Roux; Guy Sauvageau
Journal:  Blood       Date:  2017-04-13       Impact factor: 22.113

Review 2.  Liver: An organ with predominant innate immunity.

Authors:  Bin Gao; Won-Il Jeong; Zhigang Tian
Journal:  Hepatology       Date:  2008-02       Impact factor: 17.425

3.  Comparative Analysis of Droplet-Based Ultra-High-Throughput Single-Cell RNA-Seq Systems.

Authors:  Xiannian Zhang; Tianqi Li; Feng Liu; Yaqi Chen; Jiacheng Yao; Zeyao Li; Yanyi Huang; Jianbin Wang
Journal:  Mol Cell       Date:  2018-11-21       Impact factor: 17.970

4.  Identification of cDC1- and cDC2-committed DC progenitors reveals early lineage priming at the common DC progenitor stage in the bone marrow.

Authors:  Andreas Schlitzer; V Sivakamasundari; Jinmiao Chen; Hermi Rizal Bin Sumatoh; Jaring Schreuder; Josephine Lum; Benoit Malleret; Sanqian Zhang; Anis Larbi; Francesca Zolezzi; Laurent Renia; Michael Poidinger; Shalin Naik; Evan W Newell; Paul Robson; Florent Ginhoux
Journal:  Nat Immunol       Date:  2015-06-08       Impact factor: 25.606

5.  Conversion of adult endothelium to immunocompetent haematopoietic stem cells.

Authors:  Raphael Lis; Charles C Karrasch; Michael G Poulos; Balvir Kunar; David Redmond; Jose G Barcia Duran; Chaitanya R Badwe; William Schachterle; Michael Ginsberg; Jenny Xiang; Arash Rafii Tabrizi; Koji Shido; Zev Rosenwaks; Olivier Elemento; Nancy A Speck; Jason M Butler; Joseph M Scandura; Shahin Rafii
Journal:  Nature       Date:  2017-05-17       Impact factor: 49.962

6.  Tracing haematopoietic stem cell formation at single-cell resolution.

Authors:  Fan Zhou; Xianlong Li; Weili Wang; Ping Zhu; Jie Zhou; Wenyan He; Meng Ding; Fuyin Xiong; Xiaona Zheng; Zhuan Li; Yanli Ni; Xiaohuan Mu; Lu Wen; Tao Cheng; Yu Lan; Weiping Yuan; Fuchou Tang; Bing Liu
Journal:  Nature       Date:  2016-05-18       Impact factor: 49.962

7.  Highly multiplexed and strand-specific single-cell RNA 5' end sequencing.

Authors:  Saiful Islam; Una Kjällquist; Annalena Moliner; Pawel Zajac; Jian-Bing Fan; Peter Lönnerberg; Sten Linnarsson
Journal:  Nat Protoc       Date:  2012-04-05       Impact factor: 13.491

8.  Single-cell RNA-seq ties macrophage polarization to growth rate of intracellular Salmonella.

Authors:  Antoine-Emmanuel Saliba; Lei Li; Alexander J Westermann; Silke Appenzeller; Daphne A C Stapels; Leon N Schulte; Sophie Helaine; Jörg Vogel
Journal:  Nat Microbiol       Date:  2016-11-14       Impact factor: 17.745

Review 9.  Single-cell technologies to study the immune system.

Authors:  Valentina Proserpio; Bidesh Mahata
Journal:  Immunology       Date:  2015-12-27       Impact factor: 7.397

10.  Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells.

Authors:  Iain C Macaulay; Valentine Svensson; Charlotte Labalette; Lauren Ferreira; Fiona Hamey; Thierry Voet; Sarah A Teichmann; Ana Cvejic
Journal:  Cell Rep       Date:  2016-01-21       Impact factor: 9.423

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  34 in total

Review 1.  Preparation of single-cell suspensions of mouse glomeruli for high-throughput analysis.

Authors:  Ben Korin; Jun-Jae Chung; Shimrit Avraham; Andrey S Shaw
Journal:  Nat Protoc       Date:  2021-07-19       Impact factor: 13.491

Review 2.  The Application of Single-Cell RNA Sequencing in Studies of Autoimmune Diseases: a Comprehensive Review.

Authors:  Mingming Zhao; Jiao Jiang; Ming Zhao; Christopher Chang; Haijing Wu; Qianjin Lu
Journal:  Clin Rev Allergy Immunol       Date:  2020-11-25       Impact factor: 8.667

3.  Neutrophils in innate immunity and systems biology-level approaches.

Authors:  Viktoria Rungelrath; Scott D Kobayashi; Frank R DeLeo
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2019-06-20

Review 4.  Sample-multiplexing approaches for single-cell sequencing.

Authors:  Yulong Zhang; Siwen Xu; Zebin Wen; Jinyu Gao; Shuang Li; Sherman M Weissman; Xinghua Pan
Journal:  Cell Mol Life Sci       Date:  2022-08-05       Impact factor: 9.207

5.  Immune cell infiltration features and related marker genes in lung cancer based on single-cell RNA-seq.

Authors:  R Zhong; D Chen; S Cao; J Li; B Han; H Zhong
Journal:  Clin Transl Oncol       Date:  2020-07-12       Impact factor: 3.405

6.  Systematic Profiling of Full-Length Ig and TCR Repertoire Diversity in Rhesus Macaque through Long Read Transcriptome Sequencing.

Authors:  Hayden N Brochu; Elizabeth Tseng; Elise Smith; Matthew J Thomas; Aiden M Jones; Kayleigh R Diveley; Lynn Law; Scott G Hansen; Louis J Picker; Michael Gale; Xinxia Peng
Journal:  J Immunol       Date:  2020-05-06       Impact factor: 5.422

Review 7.  Integrating genetic and non-genetic determinants of cancer evolution by single-cell multi-omics.

Authors:  Anna S Nam; Ronan Chaligne; Dan A Landau
Journal:  Nat Rev Genet       Date:  2020-08-17       Impact factor: 53.242

Review 8.  Glucose Metabolism: The Metabolic Signature of Tumor Associated Macrophage.

Authors:  Qi Zhang; Junli Wang; Dipesh Kumar Yadav; Xueli Bai; Tingbo Liang
Journal:  Front Immunol       Date:  2021-06-29       Impact factor: 7.561

9.  Integrated analysis of multimodal single-cell data.

Authors:  Yuhan Hao; Stephanie Hao; Erica Andersen-Nissen; William M Mauck; Shiwei Zheng; Andrew Butler; Maddie J Lee; Aaron J Wilk; Charlotte Darby; Michael Zager; Paul Hoffman; Marlon Stoeckius; Efthymia Papalexi; Eleni P Mimitou; Jaison Jain; Avi Srivastava; Tim Stuart; Lamar M Fleming; Bertrand Yeung; Angela J Rogers; Juliana M McElrath; Catherine A Blish; Raphael Gottardo; Peter Smibert; Rahul Satija
Journal:  Cell       Date:  2021-05-31       Impact factor: 41.582

Review 10.  Applications and analytical tools of cell communication based on ligand-receptor interactions at single cell level.

Authors:  Fen Ma; Siwei Zhang; Lianhao Song; Bozhi Wang; Lanlan Wei; Fengmin Zhang
Journal:  Cell Biosci       Date:  2021-07-03       Impact factor: 7.133

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