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Open AccessJournal ArticleDOI

Applications of single-cell sequencing in cancer research: progress and perspectives

TLDR
The use of single-cell sequencing in cancer research has revolutionized our understanding of the biological characteristics and dynamics within cancer lesions, including information related to the landscapes of malignant cells and immune cells, tumor heterogeneity, circulating tumor cells and underlying mechanisms of tumor biological behaviors as mentioned in this paper.
Abstract
Single-cell sequencing, including genomics, transcriptomics, epigenomics, proteomics and metabolomics sequencing, is a powerful tool to decipher the cellular and molecular landscape at a single-cell resolution, unlike bulk sequencing, which provides averaged data. The use of single-cell sequencing in cancer research has revolutionized our understanding of the biological characteristics and dynamics within cancer lesions. In this review, we summarize emerging single-cell sequencing technologies and recent cancer research progress obtained by single-cell sequencing, including information related to the landscapes of malignant cells and immune cells, tumor heterogeneity, circulating tumor cells and the underlying mechanisms of tumor biological behaviors. Overall, the prospects of single-cell sequencing in facilitating diagnosis, targeted therapy and prognostic prediction among a spectrum of tumors are bright. In the near future, advances in single-cell sequencing will undoubtedly improve our understanding of the biological characteristics of tumors and highlight potential precise therapeutic targets for patients.

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Posted ContentDOI

Prioritizing prognostic-associated subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer

TL;DR: A data analysis framework to prioritize prognostic-associated subpopulations based on relative expression orderings (REOs) was proposed and cell type specific gene pairs (C-GPs) were identified to evaluate prognostic value for each cell type.
Journal ArticleDOI

Single-cell RNA sequencing reveals the cellular and molecular changes that contribute to the progression of lung adenocarcinoma

TL;DR: Analysis of single-cell transcriptomic profiles of 76,762 cells from four pure GGNs, four SNs, and four normal tissues found that anti-tumor immunity gradually weakened with the progression of LUAD and humoral immunity mediated by plasma B cells was more active in SNs.
Journal ArticleDOI

microDNA and ecDNA: Current methods and single-cell sequencing

TL;DR: Extrachromosomal circular DNA (eccDNA) is a class of circular DNA molecules that originate from genomic DNA but are separate from chromosomes as mentioned in this paper , and it has been used extensively in cancer development, progression, evolution and drug resistance.
Journal ArticleDOI

Editorial: Single cell intelligence and tissue engineering

TL;DR: Department of Bioinformatics, School of Biomedical Engineering and Informatics; Nanjing Medical University, Nanjing, China, Institute for Tissue Engineering and Regenerative Medicine; and Zhejiang University-University of Edinburgh Institute,ZhejiangUniversity School of Medicine.
References
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Journal ArticleDOI

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

TL;DR: The feasibility of analyzing an individual's epigenome on a timescale compatible with clinical decision-making is demonstrated and classes of DNA-binding factors that strictly avoided, could tolerate or tended to overlap with nucleosomes are discovered.
Journal ArticleDOI

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

TL;DR: This work has developed a high-throughput droplet-microfluidic approach for barcoding the RNA from thousands of individual cells for subsequent analysis by next-generation sequencing, which shows a surprisingly low noise profile and is readily adaptable to other sequencing-based assays.
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