Single-cell sequencing of brain tissues reveal the central nervous system’s susceptibility to SARS-CoV-2 and the drug

Lu, Zhichao; Wang, Ziheng; Song, Zhuhuan; Chen, Chen; He, Mingguang; Gong, Peipei; Xu, Yunzhao

doi:10.3389/fphar.2022.971017

Cited by 4 publications

(4 citation statements)

References 23 publications

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“…Automatic annotation of the cells was done with the SingleR program. We conducted pseudotime trajectory analysis using the default configuration parameters of the Monocle 2 program [ 22 ].…”

Section: Methodsmentioning

confidence: 99%

Identification of the Hub Genes Involved in Stem Cell Treatment for Intervertebral Disc Degeneration: A Conjoint Analysis of Single-Cell and Machine Learning

Chen

et al. 2023

Stem Cells International

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Intervertebral disc degeneration (IDD), which is distinguished by a variety of pathologic alterations, is the major cause of low back pain (LBP). Nonetheless, preventative measures or therapies that may delay IDD are scarcely available. In this study, we sought to identify new diagnostic biological markers for IDD. In this first-of-a-kind study combining machine learning, stem cell treatment samples and single-cell sequencing data were collected. Differentially expressed genes (DEGs) were detected from the treatment group and clusters. To filter potential markers, support vector machine analysis and LASSO were performed. LAPTM5 was found to be the hub gene for IDD. In addition, the results of single-cell sequencing demonstrated the critical function of stem cells in IDD. Finally, we found that aging is significantly associated with the rate of stem cells. In general, our results may offer fresh insights that may be used in the investigation of innovative markers for diagnosing IDD. The critical genes identified by the machine learning algorithm could provide new perspectives on IDD.

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Section: Methodsmentioning

confidence: 99%

Identification of the Hub Genes Involved in Stem Cell Treatment for Intervertebral Disc Degeneration: A Conjoint Analysis of Single-Cell and Machine Learning

Chen

et al. 2023

Stem Cells International

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“…Ultimately, all cells in the dataset met quality control standards. Principal component analysis (PCA) ( 13 )was performed using the Seurat package ( 14 ) (version 3.2.2) in R software (version 4.0.2), along with JackStraw and PCEIbowPlot ( 15 ) functions, to select important principal components (PCs). Seurat’s FindAllMarkers function was used to identify specific genes for each cell subgroup.…”

Section: Methodsmentioning

confidence: 99%

Exploring the role of macrophages in the progression from atypical hyperplasia to endometrial carcinoma through single-cell transcriptomics and bulk transcriptomics analysis

Song,

Na,

Peng

et al. 2023

Front. Endocrinol.

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IntroductionIn this study, we aimed to identify key genes in endometrial cancer by conducting single-cell analysis of macrophages.MethodsWe sourced clinical data from the TCGA database as well as supplementary datasets GSE201926 and GSE173682. Using bulk-seq data of atypical endometrial hyperplasia and endometrial cancer, we pinpointed key differentially expressed genes. Single-cell RNA sequencing was utilized for further gene expression analysis. Cluster analysis was conducted on TCGA tumor data, identifying two distinct subtypes. Statistical methods employed included LASSO regression for diagnostic modeling and various clustering algorithms for subtype identification.ResultsWe found that subtype B was closely related to cellular metabolism. A diagnostic model was established using LASSO regression and was based on the genes CDH18, H19, PAGE2B, PXDN, and THRB. This model effectively differentiated the prognosis of cervical cancer. We also constructed a prognosis model and a column chart based on these key genes.DiscussionThrough CIBERSORT analysis, CDH18 and PAGE2B were found to be strongly associated with macrophage M0. We propose that these genes influence the transformation from atypical endometrial hyperplasia to endometrial cancer by affecting macrophage M0. In conclusion, these key genes may serve as therapeutic targets for endometrial cancer. A new endometrial cancer risk prognosis model and column chart have been constructed based on these genes, offering a reliable direction for future cervical cancer treatment.

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“…However, many of those did so by immunostaining or in situ hybridization and without co-staining for endothelial markers [ 40 – 42 ]. And while the question of whether endothelial cell express ACE2 should easily be resolved by single cell RNA-Seq experiments, even those results are contradicting, with some results indicating little or no expression [ 43 – 46 ] and other stating that there is high expression in endothelial cells [ 47 ]. In papers that specifically looked at the heart, only cardiomyocytes and pericytes were found to have any significant expression of ACE2 [ 46 , 48 , 49 ].…”

Section: Endothelial Cell Damage and Microthrombi Formationmentioning

confidence: 99%

Mechanism of COVID-19-Induced Cardiac Damage from Patient, In Vitro and Animal Studies

Jones

2023

Curr Heart Fail Rep

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Purpose of Review Though patient studies have been important for understanding the disease, research done in animals and cell culture complement our knowledge from patient data and provide insight into the mechanism of the disease. Understanding how COVID causes damage to the heart is essential to understanding possible long-term consequences. Recent Findings COVID-19 is primarily a disease that attacks the lungs; however, it is known to have important consequences in many other tissues including the heart. Though myocarditis does occur in some patients, for most cases of cardiac damage, the injury arises from scarring either due to myocardial infarction or micro-infarction. Summary The main focus is on how COVID affects blood flow through the coronaries. We review how endothelial activation leads to a hypercoagulative state in COVID-19. We also emphasize the effects that the cytokine storm can directly have on the regulation of coronary blood flow. Since the main two cell types that can be infected in the heart are pericytes and cardiomyocytes, we further describe the known effects on pericyte function and how that can further lead to microinfarcts within the heart. Though many of these effects are systemic, this review focuses on the consequences on cardiac tissue of this dysregulation and the role that it has in the formation of myocardial scarring.

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Single-cell sequencing of brain tissues reveal the central nervous system’s susceptibility to SARS-CoV-2 and the drug

Cited by 4 publications

References 23 publications

Identification of the Hub Genes Involved in Stem Cell Treatment for Intervertebral Disc Degeneration: A Conjoint Analysis of Single-Cell and Machine Learning

Identification of the Hub Genes Involved in Stem Cell Treatment for Intervertebral Disc Degeneration: A Conjoint Analysis of Single-Cell and Machine Learning

Exploring the role of macrophages in the progression from atypical hyperplasia to endometrial carcinoma through single-cell transcriptomics and bulk transcriptomics analysis

Mechanism of COVID-19-Induced Cardiac Damage from Patient, In Vitro and Animal Studies

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