Research and application of single-cell sequencing in tumor heterogeneity and drug resistance of circulating tumor cells

Dai, Zhe; Gu, Xuyu; Xiang, Shouyan; Gong, Dandan; Man, Changfeng; Fan, Yu

doi:10.1186/s40364-020-00240-1

Cited by 23 publications

(17 citation statements)

References 74 publications

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“…As a result, label-free approaches, combined with genetic sequencing methods, have been developed to overcome these limitations of marker-based capture, which, however, have been limited themselves by their low throughput. More recently, the limitations of label-free approaches, such as ISET, have been overcome via the development of highthroughput approaches, such as microfluidics involving the generation of Dean vortices to separate out the larger CTCs from the smaller blood cells, which, combined with single-cell genetic sequencing, have been able to obtain CTCs from the majority of tested patients, which otherwise would be missed from more traditional surface markerbased approaches, due to being mostly EpCAM− (46,(48)(49)(50). This combination has also been found to be effective for other cancer types, such as breast and colorectal cancers (47,51).…”

Section: Discussionmentioning

confidence: 99%

The combination of computed tomography features and circulating tumor cells increases the surgical prediction of visceral pleural invasion in clinical T1N0M0 lung adenocarcinoma

Shi¹,

Li²,

Yang³

et al. 2021

Transl Lung Cancer Res

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Background: Visceral pleural invasion (VPI) is a clinical manifestation associated with a poor prognosis, and diagnosing it preoperatively is highly imperative for successful sublobar resection of these peripheral tumors. We evaluated the roles of computed tomography (CT) features and circulating tumor cells (CTCs) for improving VPI detection in patients with clinical T1N0M0 invasive lung adenocarcinoma.Methods: Three hundred and ninety-one patients were reviewed retrospectively in this study, of which 234 presented with a pleural tag or pleural contact on CT images. CTCs positive for the foliate receptors were enriched and analyzed prior to surgery. Logistic regression analyses were performed to assess the association of CT features and CTCs with VPI, and the receiver operating characteristic (ROC) curve was generated to compare the predictive power of these variables.Results: Patients mostly underwent either segmentectomies (18.9%) or lobectomies (79.0%). Only 49 of the 234 patients with pleural involvement on CT showed pathologically confirmed VPI. Multivariate logistic regression analysis revealed that CTC level ≥10.42 FU/3 mL was a significant VPI risk factor for invasive adenocarcinoma cases ≤30 mm [adjusted odds ratio (OR) =4.62, 95% confidence interval (CI): 2.05-10.44, P<0.001]. Based on CT features, subgroup analyses showed that the solid portion size was a statistically significant independent predictor of VPI for these peripheral nodules with pleural tag, while the solid portion length of the interface was an independent predictor of pleural contact. The receiver operating curve analyses showed that the combination of CTC and CT features were highly predictive of VPI [area under the curve (AUC) =0.921 for pleural contact and 0.862 for the pleural tag, respectively].Conclusions: CTC, combined with CT features of pleural tag or pleural contact, could significantly improve VPI detection in invasive lung adenocarcinomas at clinical T1N0M0 stage prior to the patient's surgery.

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Section: Discussionmentioning

confidence: 99%

The combination of computed tomography features and circulating tumor cells increases the surgical prediction of visceral pleural invasion in clinical T1N0M0 lung adenocarcinoma

Shi¹,

Li²,

Yang³

et al. 2021

Transl Lung Cancer Res

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“…That allows an unprecedented dissection of transcription within millions of individual cells. Both single-cell RNA sequencing (scRNA-seq) and single-nucleus RNA sequencing (snRNA-seq) have exciting applications [65][66][67][68][69][70][71][72][73][74][75][76][77], for instance: (i) discovering and characterizing cell type in health and diseases, such as cancer [13,[78][79][80][81][82][83][84][85][86][87][88][89], with implications in immunology [90], immune-mediated diseases [91], immunotherapy [92][93][94][95][96][97][98][99][100] and drug resistance [101]; (ii) deciphering the roles of such specific cell types in health and disease [102], including mitochondrial heteroplasmy [33]; and (iii) analyzing cell emergence, development and plasticity in tissues and organisms. These studies are also applied to study plant biology [103,104].…”

Section: Functional Genomicsmentioning

confidence: 99%

Analyzing Modern Biomolecules: The Revolution of Nucleic-Acid Sequencing – Review

et al. 2021

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Recent developments have revolutionized the study of biomolecules. Among them are molecular markers, amplification and sequencing of nucleic acids. The latter is classified into three generations. The first allows to sequence small DNA fragments. The second one increases throughput, reducing turnaround and pricing, and is therefore more convenient to sequence full genomes and transcriptomes. The third generation is currently pushing technology to its limits, being able to sequence single molecules, without previous amplification, which was previously impossible. Besides, this represents a new revolution, allowing researchers to directly sequence RNA without previous retrotranscription. These technologies are having a significant impact on different areas, such as medicine, agronomy, ecology and biotechnology. Additionally, the study of biomolecules is revealing interesting evolutionary information. That includes deciphering what makes us human, including phenomena like non-coding RNA expansion. All this is redefining the concept of gene and transcript. Basic analyses and applications are now facilitated with new genome editing tools, such as CRISPR. All these developments, in general, and nucleic-acid sequencing, in particular, are opening a new exciting era of biomolecule analyses and applications, including personalized medicine, and diagnosis and prevention of diseases for humans and other animals.

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“…These methods have allowed us to identify and characterize unique cell subpopulations, distinguish cell transition states, map molecular markers, identify novel and previously unrecognized biological features, and in combination with other technologies, are beginning to be used to spatially map tumor cell populations, identify circulating tumor cells and provide mechanistic insight into tumorigenic processes including metastasis and therapeutic response. Given spatial limitations, we point our readers to an excellent collection of review articles that discuss these advances in depth [ 180 , 181 , 182 , 183 , 184 , 185 , 186 , 187 , 188 , 189 , 190 , 191 ].…”

Section: Advances In Genomic Analyses Of Breast and Ovarian Cancermentioning

confidence: 99%

Recent Advances in Integrative Multi-Omics Research in Breast and Ovarian Cancer

Khella

Mehta

et al. 2021

JPM

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The underlying molecular heterogeneity of cancer is responsible for the dynamic clinical landscape of this disease. The combination of genomic and proteomic alterations, including both inherited and acquired mutations, promotes tumor diversity and accounts for variable disease progression, therapeutic response, and clinical outcome. Recent advances in high-throughput proteogenomic profiling of tumor samples have resulted in the identification of novel oncogenic drivers, tumor suppressors, and signaling networks; biomarkers for the prediction of drug sensitivity and disease progression; and have contributed to the development of novel and more effective treatment strategies. In this review, we will focus on the impact of historical and recent advances in single platform and integrative proteogenomic studies in breast and ovarian cancer, which constitute two of the most lethal forms of cancer for women, and discuss the molecular similarities of these diseases, the impact of these findings on our understanding of tumor biology as well as the clinical applicability of these discoveries.

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Research and application of single-cell sequencing in tumor heterogeneity and drug resistance of circulating tumor cells

Cited by 23 publications

References 74 publications

The combination of computed tomography features and circulating tumor cells increases the surgical prediction of visceral pleural invasion in clinical T1N0M0 lung adenocarcinoma

The combination of computed tomography features and circulating tumor cells increases the surgical prediction of visceral pleural invasion in clinical T1N0M0 lung adenocarcinoma

Analyzing Modern Biomolecules: The Revolution of Nucleic-Acid Sequencing – Review

Recent Advances in Integrative Multi-Omics Research in Breast and Ovarian Cancer

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