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Open AccessJournal ArticleDOI

Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19.

Mingfeng Liao, +13 more
- 12 May 2020 - 
- Vol. 26, Iss: 6, pp 842-844
TLDR
Single-cell transcriptome and T cell receptor analysis of bronchoalveolar lavage fluid suggests enrichment of proinflammatory macrophages in patients with severe COVID-19 and the presence of clonally expanded CD8 + T cells in Patients with moderate CO VID-19.
Abstract: 
Respiratory immune characteristics associated with Coronavirus Disease 2019 (COVID-19) severity are currently unclear. We characterized bronchoalveolar lavage fluid immune cells from patients with varying severity of COVID-19 and from healthy people by using single-cell RNA sequencing. Proinflammatory monocyte-derived macrophages were abundant in the bronchoalveolar lavage fluid from patients with severe COVID-9. Moderate cases were characterized by the presence of highly clonally expanded CD8+ T cells. This atlas of the bronchoalveolar immune microenvironment suggests potential mechanisms underlying pathogenesis and recovery in COVID-19.

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Journal ArticleDOI

Defining the Innate Immune Responses for SARS-CoV-2-Human Macrophage Interactions.

Mai Mohamed Abdelmoaty, +12 more
- 04 Oct 2021 - 
TL;DR: In this paper, the authors investigated transcriptomic and proteomic profiles of human monocyte-derived macrophages and concluded that the SARS-CoV-2-infected host mounts a robust innate immune response characterized by a pro-inflammatory storm heralding end-organ tissue damage.
Journal ArticleDOI

Resolvin D1 and D2 reduce SARS-CoV-2-induced inflammatory responses in cystic fibrosis macrophages.

Antonio Recchiuti, +8 more
- 01 Apr 2021 - 
TL;DR: In this paper, the authors analyzed the immune responses to SARS-CoV-2 virion spike 1 glycoprotein (S1) of macrophages (MΦ) from volunteers with and without CF and tested the efficacy of resolvins (Rv) D1 and D2 in regulating the inflammatory and antimicrobial functions of MΦ exposed to S1.
Journal ArticleDOI

Single-cell transcriptome of bronchoalveolar lavage fluid reveals sequential change of macrophages during SARS-CoV-2 infection in ferrets.

Jeong Seok Lee, +11 more
- 27 Jul 2021 - 
TL;DR: In this paper, the authors performed single-cell RNA sequencing of bronchoalveolar lavage fluid cells longitudinally obtained from SARS-CoV-2-infected ferrets.
Journal ArticleDOI

Putative Role of Vitamin D for COVID-19 Vaccination.

Sheng-Kang Chiu, +9 more
- 20 Aug 2021 - 
TL;DR: In this article, the authors investigated the role of vitamin D in the development of vaccine efficacy in severe acute respiratory syndrome coronavirus disease (COVID-19) and found that vit-D plays a complementary role in vaccine efficacy.
Journal ArticleDOI

Galectin-3 as a potential prognostic biomarker of severe COVID-19 in SARS-CoV-2 infected patients

Nalu Navarro-Alvarez, +1 more
- 03 Feb 2022 - 
TL;DR: In this paper , the potential of galectin-3 as a biomarker of severe COVID-19 outcomes was investigated, and the results showed that it is an independent predictor of severe outcomes.
References
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Journal ArticleDOI

Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China

Chaolin Huang, +28 more
- 24 Jan 2020 - 
TL;DR: The epidemiological, clinical, laboratory, and radiological characteristics and treatment and clinical outcomes of patients with laboratory-confirmed 2019-nCoV infection in Wuhan, China, were reported.
Journal ArticleDOI

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

Aravind Subramanian, +10 more
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TL;DR: The Gene Set Enrichment Analysis (GSEA) method as discussed by the authors focuses on gene sets, that is, groups of genes that share common biological function, chromosomal location, or regulation.
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STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, +8 more
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TL;DR: The Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure outperforms other aligners by a factor of >50 in mapping speed.
Journal ArticleDOI

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

Guangchuang Yu, +3 more
- 03 May 2012 - 
TL;DR: An R package, clusterProfiler that automates the process of biological-term classification and the enrichment analysis of gene clusters and can be easily extended to other species and ontologies is presented.
Journal ArticleDOI

Comprehensive Integration of Single-Cell Data.

Tim Stuart, +9 more
- 13 Jun 2019 - 
TL;DR: A strategy to "anchor" diverse datasets together, enabling us to integrate single-cell measurements not only across scRNA-seq technologies, but also across different modalities.
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