Single-Cell Genomics

被引:52
作者
Paolillo, Carmela [1 ]
Londin, Eric [2 ]
Fortina, Paolo [3 ,4 ]
机构
[1] Univ Penn, Perelman Sch Med, Dept Clin Pathol & Lab Med Idne, Div Precis & Computat Diagnost, Philadelphia, PA 19104 USA
[2] Thomas Jefferson Univ, Computat Med Ctr, Sidney Kimmel Med Coll, Philadelphia, PA 19107 USA
[3] Thomas Jefferson Univ, Dept Canc Biol, Sidney Kimmel Med Coll, Philadelphia, PA 19107 USA
[4] Sapienza Univ, Dept Mol Med, Rome, Italy
关键词
CIRCULATING TUMOR-CELLS; MESSENGER-RNA-SEQ; CLONAL EVOLUTION; STEM-CELLS; ANTIGEN; REVEALS; HETEROGENEITY; EXPRESSION; POPULATIONS; CIRCUITS;
D O I
10.1373/clinchem.2017.283895
中图分类号
R446 [实验室诊断]; R-33 [实验医学、医学实验];
学科分类号
1001 ;
摘要
BACKGROUND: Single-cell genomics is an approach to investigate cell heterogeneity and to identify new molecular features correlated with clinical outcomes. This approach allows identification of the complexity of cell diversity in a sample without the loss of information that occurs when multicellular or bulk tissue samples are analyzed. CONTENT: The first single-cell RNA-sequencing study was published in 2009, and since then many more studies and single-cell sequencing methods have been published. These studies have had a major impact on several fields, including microbiology, neurobiology, cancer, and developmental biology. Recently, improvements in reliability and the development of commercial single-cell isolation platforms are opening the potential of this technology to the clinical laboratory. SUMMARY: In this review we provide an overview of the current state of single-cell genomics. We describe opportunities in clinical research and medical applications. (C) 2019 American Association for Clinical Chemistry
引用
收藏
页码:972 / 985
页数:14
相关论文
共 104 条
[91]   Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq [J].
Tirosh, Itay ;
Izar, Benjamin ;
Prakadan, Sanjay M. ;
Wadsworth, Marc H., II ;
Treacy, Daniel ;
Trombetta, John J. ;
Rotem, Asaf ;
Rodman, Christopher ;
Lian, Christine ;
Murphy, George ;
Fallahi-Sichani, Mohammad ;
Dutton-Regester, Ken ;
Lin, Jia-Ren ;
Cohen, Ofir ;
Shah, Parin ;
Lu, Diana ;
Genshaft, Alex S. ;
Hughes, Travis K. ;
Ziegler, Carly G. K. ;
Kazer, Samuel W. ;
Gaillard, Aleth ;
Kolb, Kellie E. ;
Villani, Alexandra-Chloe ;
Johannessen, Cory M. ;
Andreev, Aleksandr Y. ;
Van Allen, Eliezer M. ;
Bertagnolli, Monica ;
Sorger, Peter K. ;
Sullivan, Ryan J. ;
Flaherty, Keith T. ;
Frederick, Dennie T. ;
Jane-Valbuena, Judit ;
Yoon, Charles H. ;
Rozenblatt-Rosen, Orit ;
Shalek, Alex K. ;
Regev, Aviv ;
Garraway, Levi A. .
SCIENCE, 2016, 352 (6282) :189-196
[92]   Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development [J].
Tohonen, Virpi ;
Katayama, Shintaro ;
Vesterlund, Liselotte ;
Jouhilahti, Eeva-Mari ;
Sheikhi, Mona ;
Madissoon, Elo ;
Filippini-Cattaneo, Giuditta ;
Jaconi, Marisa ;
Johnsson, Anna ;
Burglin, Thomas R. ;
Linnarsson, Sten ;
Hovatta, Outi ;
Kere, Juha .
NATURE COMMUNICATIONS, 2015, 6
[93]   Platforms for Single-Cell Collection and Analysis [J].
Valihrach, Lukas ;
Androvic, Peter ;
Kubista, Mikael .
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2018, 19 (03)
[94]   Novel Method for High-Throughput Full-Length IGHV-D-J Sequencing of the Immune Repertoire from Bulk B-Cells with Single-Cell Resolution [J].
Vergani, Stefano ;
Korsunsky, Ilya ;
Mazzarello, Andrea Nicola ;
Ferrer, Gerardo ;
Chiorazzi, Nicholas ;
Bagnara, Davide .
FRONTIERS IN IMMUNOLOGY, 2017, 8
[95]   Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors [J].
Villani, Alexandra-Chloe ;
Satija, Rahul ;
Reynolds, Gary ;
Sarkizova, Siranush ;
Shekhar, Karthik ;
Fletcher, James ;
Griesbeck, Morgane ;
Butler, Andrew ;
Zheng, Shiwei ;
Lazo, Suzan ;
Jardine, Laura ;
Dixon, David ;
Stephenson, Emily ;
Nilsson, Emil ;
Grundberg, Ida ;
McDonald, David ;
Filby, Andrew ;
Li, Weibo ;
De Jager, Philip L. ;
Rozenblatt-Rosen, Orit ;
Lane, Andrew A. ;
Haniffa, Muzlifah ;
Regev, Aviv ;
Hacohen, Nir .
SCIENCE, 2017, 356 (6335)
[96]  
Villani AC, 2017, METHODS MOL BIOL, V1514, P203, DOI 10.1007/978-1-4939-6548-9_16
[97]  
Vitak SA, 2017, NAT METHODS, V14, P302, DOI [10.1038/nmeth.4154, 10.1038/NMETH.4154]
[98]  
Wang L, 2017, ONCOTARGET, V8
[99]   Clonal evolution in breast cancer revealed by single nucleus genome sequencing [J].
Wang, Yong ;
Waters, Jill ;
Leung, Marco L. ;
Unruh, Anna ;
Roh, Whijae ;
Shi, Xiuqing ;
Chen, Ken ;
Scheet, Paul ;
Vattathil, Selina ;
Liang, Han ;
Multani, Asha ;
Zhang, Hong ;
Zhao, Rui ;
Michor, Franziska ;
Meric-Bernstam, Funda ;
Navin, Nicholas E. .
NATURE, 2014, 512 (7513) :155-+
[100]   Partial characterization of the calcium-releasing activity of porcine sperm cytosolic extracts [J].
Wu, H ;
He, CL ;
Jehn, B ;
Black, SJ ;
Fissore, RA .
DEVELOPMENTAL BIOLOGY, 1998, 203 (02) :369-381