Advances of Single-Cell Sequencing Technique in Tumors

doi:10.11910/2227-6394.2017.05.01.02

Abstract
Figure/Table
References (33)
Related Citation (15)

Download: PDF (262 KB) RICH HTML
Export: BibTeX | EndNote (RIS)

Abstract

With the completion of human genome project (HGP) and the international HapMap project as well as rapid development of high-throughput biochip technology, whole genomic sequencing-targeted analysis of genomic structures has been primarily finished. Application of single cell for the analysis of the whole genomics is not only economical in material collection, but more importantly, the cell will be more purified, and the laboratory results will be more accurate and reliable. Therefore, exploration and analysis of hereditary information of single tumor cells has become the dream of all researchers in the field of basic research of tumors. At present, single-cell sequencing (SCS) on malignancies has been widely used in the studies of pathogeneses of multiple malignancies, such as glioma, renal cancer and hematologic neoplasms, and in the studies of the metastatic mechanism of breast cancer by some researchers. This study mainly reviewed the SCS, the mechanisms and the methods of SCS in isolating tumor cells, and application of SCS technique in tumor-related basic research and clinical treatment.

Key words： Single-cell sequencing Tumor Human genome project International HanMap project Circulating tumor cell

Corresponding Authors: Feng Ji-feng, E-mail: fjif@vip.sina.com

	Service

	E-mail this article
	Add to my bookshelf
	Add to citation manager
	E-mail Alert
	RSS
	Articles by authors
	FENG Ji-feng

Cite this article:

FENG Ji-feng. Advances of Single-Cell Sequencing Technique in Tumors[J]. Journal of International Translational Medicine, 2017, 5(1): 8-13.

URL:

http://www.jitm.hk/EN/10.11910/2227-6394.2017.05.01.02 OR http://www.jitm.hk/EN/Y2017/V5/I1/8

1 Navin N, Kendall J, Troge J, et al. Tumour evolution inferred by single-cell sequencing. Nature, 2011, 472(7341): 90-94. doi: 10.1038/nature09807.
2 Xu X, Hou Y, Yin X, et al. Single-cell exome sequencing reveals single-nucleotide mutation characteristics of a kidney tumor. Cell, 2012, 148(5): 886-895. doi: 10.1016/j.cell.2012.02.025.
3 Tang DT, Plessy C, Salimullah M,et al. Suppression of artifacts and barcode bias in high-throughput transcriptome analyses utilizing template switching. Nucleic Acids Res, 2013, 41(3): e44. doi: 10.1093/nar/gks1128.
4 Girardot C, Scholtalbers J, Sauer S, et al. Je, a versatile suite to handle multiplexed NGS libraries with unique molecular identifiers. BMC Bioinformatics, 2016, 17(1): 419. doi: 10.1186/s12859-016-1284-2.
5 Borgström E, Paterlini M, Mold JE, et al. Comparison of whole genome amplification techniques for human single cell exome sequencing. PLoS One, 2017, 12(2): e0171566. doi: 10.1371/journal.pone.0171566.
6 Chen M, Song P, Zou D, et al. Correction: comparison of multiple displacement amplification (MDA) and multiple annealing and looping-based amplifcation cycles (MALBAC) in single-cell sequencing. PLoS One, 2015, 10(4): e0124990. doi: 10.1371/journal.pone.0124990.
7 Koyama S, Konishi MA, Ohta Y, et al. Attachment and detachment of living microorganisms using a potentialcontrolled electrode. Mar Biotechnol (NY), 2013, 15(4): 461-475. doi: 10.1007/s10126-013-9495-2.
8 Dispinseri S, Saba E, Vicenzi E, et al. HIV-1 isolation from infected peripheral blood mononuclear cells. Methods Mol Biol, 2014, 1087: 187-196. doi: 10.1007/978-1-62703-670-2_15.
9 Shapiro E, Biezuner T, Linnarsson S. Single-cell sequencing-based technologies will revolutionize wholeorganism science. Nat Rev Genet, 2013, 14(9): 618-630. doi: 10.1038/nrg3542.
10 Seth-Smith HM, Harris SR, Scott P,et al. Generating whole bacterial genome sequences of low-abundance species from complex samples with IMS-MDA. Nat Protoc, 2013, 8(12): 2404-2412. doi: 10.1038/nprot.2013.147.
11 Osawa M, Mine S, Ota S,et al. Establishing and characterizing a new primary effusion lymphoma cell line harboring Kaposi’s sarcoma-associated herpesvirus. Infect Agent Cancer, 2016, 11: 37. doi: 10.1186/s13027-016-0086-5.
12 Chen C, Yang J, Dong J. Application of single cell sequencing in basic researches of tumors. Chongqing Med, 2014, (32): 4374-4376. doi: 10.3969/j.issn.1671-8348.2014.32.037.
13 Ding L, Getz G, Wheeler DA, et al. Somatic mutations affect key pathways in lung adenocarcinoma. Nature, 2008, 455(7216): 1069-1075. doi: 10.1038/nature07423.
14 Mayer V, Schoen U, Holinski-Feder E, et al. Single cell analysis of mutations in the APC gene. Fetal Diagn Ther, 2009, 26(3): 148-156. doi: 10.1159/000248721.
15 Clark MJ, Homer N, O’Connor BD, et al. U87MG decoded: the genomic sequence of a cytogenetically aberrant human cancer cell line. PLoS Genet, 2010, 6(1): e1000832. doi: 10.1371/journal.pgen.1000832.
16 Bass AJ, Lawrence MS, Brace LE, et al. Genomic sequencing of colorectal adenocarcinomas identifies a recurrent VTI1A-TCF7L2 fusion. Nat Genet, 2011, 43(10): 964-968. doi: 10.1038/ng.936.
17 Hou Y, Song L, Zhu P, et al. Single-cell exome sequencing and monoclonal evolution of a JAK2-negative myeloproliferative neoplasm. Cell, 2012, 148(5): 873-885. doi: 10.1016/j.cell.2012.02.028.
18 Ni X, Zhuo M, Su Z, et al. Reproducible copy number variation patterns among single circulating tumor cells of lung cancer patients. Proc Natl Acad Sci U S A, 2013, 110(52): 21083-21088. doi: 10.1073/pnas.1320659110.
19 Egatz-Gomez A, Wang C, Klacsmann F, et al. Future microﬂuidic and nanoﬂuidic modular platforms for nucleic acid liquid biopsy in precision medicine. Biomicroﬂuidics, 2016, 10(3): 032902. doi: 10.1063/1.4948525.
20 Dawson SJ, Tsui DW, Murtaza M, et al. Analysis of circulating tumor DNA to monitor metastatic breast cancer. N Engl J Med, 2013, 368(13): 1199-1209. doi: 10.1056/NEJMoa1213261.
21 Aceto N, Bardia A, Miyamoto DT,et al. Circulating tumor cell clusters are oligoclonal precursors of breast cancer metastasis. Cell, 2014, 158(5): 1110-1122. doi: 10.1016/j.cell.2014.07.013.
22 Ding L, Ellis MJ, Li S, et al. Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature, 2010, 464(7291): 999-1005. doi: 10.1038/nature08989.
23 Ting DT, Wittner BS, Ligorio M, et al. Single-cell RNA sequencing identifes extracellular matrix gene expression by pancreatic circulating tumor cells. Cell Rep, 2014, 8(6): 1905-1918. doi: 10.1016/j.celrep.2014.08.029.
24 Liu TJ, Sun BC, Zhao XL, et al. CD133(+1) cells with cancer stem cell characteristics associates with vasculogenic minicry in triple-negative breast cancer. Oncogene, 2013,32(5): 544-553. doi: 10.1038/onc.2012.85.
25 Felthaus O, Ettl T, Gosau M,et al. Cancer stem cell-like cells from a single cell of oral squamous carcinoma cell lines. Biochem Biophys Res Commun, 2011, 407(1): 28-33. doi: 10.1016/j.bbrc.2011.02.084.
26 Lee MC, Lopez-Diaz FJ, Khan SY, et al. Single-cell analyses of transcriptional heterogeneity during drug tolerance transition in cancer cells by RNA sequencing. Proc Natl Acad Sci U S A, 2014, 111(44): E4726-4735. doi: 10.1073/pnas.1404656111.
27 Gerlinger M, Swanton C. How Darwinian models inform therapeutic failure initiated by clonal heterogeneity in cancer medicine. Br J Cancer, 2010, 103(8): 1139-1143. doi: 10.1038/sj.bjc.6605912.
28 Cooke SL, Temple J, Macarthur S, et al. Intra-tumour genetic heterogeneity and poor chemoradiotherapy response in cervical cancer. Br J Cancer, 2011, 104(2): 361-368. doi: 10.1038/sj.bjc.6605971.
29 Kohno T, Ichikawa H, Totoki Y, et al. KIF5B-RET fusions in lung adenocarcinoma. Nat Med, 2012, 18(3): 375-377. doi: 10.1038/nm.2644.
30 Uchida J, Kato K, Kukita Y, et al. Diagnostic accuracy of noninvasive genotyping of EGFR in lung cancer patients by deep sequencing of plasma cell-free DNA. Clin Chem, 2015, 61(9): 1191-1196. doi: 10.1373/clinchem.2015.241414.
31 Sorber L, Zwaenepoel K, Deschoolmeester V, et al. Circulating cell-free nucleic acids and platelets as a liquid biopsy in the provision of personalized therapy for lung cancer patients. Lung Cancer, 2016, doi: 10.1016/j.lungcan.2016.04.026.
32 Demeulemeester J, Kumar P, Møller EK, et al. Tracing the origin of disseminated tumor cells in breast cancer using single-cell sequencing. Genome Biol, 2016, 17(1): 250. doi: 10.1186/s13059-016-1109-7.
33 Bidard FC, Mathiot C, Delaloge S,et al. Single circulating tumor cell detection and overall survival in nonmetastatic breast cancer. Ann Oncol, 2010, 21(4): 729-733. doi: 10.1093/annonc/mdp391.