Journal ArticleDOI
Decoding Human Megakaryocyte Development.
Hongtao Wang,Jian He,Changlu Xu,Xiaoyuan Chen,Hua Yang,Shujuan Shi,Cuicui Liu,Yang Zeng,Dan Wu,Zhijie Bai,Mengge Wang,Yuqi Wen,Pei Su,Meijuan Xia,Baiming Huang,Chunyu Ma,Lihong Bian,Yu Lan,Tao Cheng,Lihong Shi,Bing Liu,Jiaxi Zhou +21 more
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TLDR
Single-cell RNA sequencing of human MKs from embryonic yolk sac and fetal liver is used to characterize the transcriptome, cellular heterogeneity, and developmental trajectories of early megakaryopoiesis and identifies a subpopulation of CD42b+CD14+ MKs in vivo that exhibit high expression of genes associated with immune responses.About:
This article is published in Cell Stem Cell.The article was published on 2021-03-04. It has received 66 citations till now. The article focuses on the topics: Megakaryopoiesis & Transcriptome.read more
Citations
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Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq
Itay Tirosh,Benjamin Izar,Daniel J. Treacy,John J. Trombetta,Asaf Rotem,Christopher Rodman,Christine G. Lian,George F. Murphy,Mohammad Fallahi-Sichani,Ken Dutton-Regester,Jia-Ren Lin,Ofir Cohen,Parin Shah,Diana Lu,Alexandra-Chloé Villani,Aleksandr Andreev,E.M. Van Allen,Monica M. Bertagnolli,Peter K. Sorger,Ryan J. Sullivan,Keith T. Flaherty,Dennie T. Frederick,Judit Jané-Valbuena,Orit Rozenblatt-Rosen,Sanjay M. Prakadan,Marc H. Wadsworth,Alex S. Genshaft,Travis K. Hughes,Carly G. K. Ziegler,Samuel W. Kazer,Alethe Gaillard de Saint Germain,Kellie E. Kolb,Cory M. Johannessen,Clifford H. Yoon,Alex K. Shalek,Aviv Regev,Levi A. Garraway +36 more
TL;DR: Tirosh et al. as discussed by the authors applied single-cell RNA sequencing (RNA-seq) to 4645 single cells isolated from 19 patients, profiling malignant, immune, stromal, and endothelial cells.
Journal ArticleDOI
Single-cell analysis of ploidy and the transcriptome reveals functional and spatial divergency in murine megakaryopoiesis
Shu Sun,Shu Sun,Chen Jin,Chen Jin,Jia Si,Jia Si,Ying Lei,Ying Lei,Kunying Chen,Kunying Chen,Yueli Cui,Yueli Cui,Zhenbo Liu,Jiang Liu,Jiang Liu,Meng Zhao,Xiao-Hui Zhang,Fuchou Tang,Fuchou Tang,Matthew T. Rondina,Matthew T. Rondina,Yueying Li,Yueying Li,Qianfei Wang,Qianfei Wang +24 more
TL;DR: In this paper, the authors manually isolated primary CD41+ cells from the bone marrow (BM) of mice and human donors based on ploidy (2N-32N) and performed single-cell RNA sequencing analysis.
Journal ArticleDOI
Platelet Biogenesis in the Lung Circulation
TL;DR: It is concluded that the lung has significant hematopoietic potential including being a major site of platelet biogenesis and orthotopic, single-lung transplantation experiments into thrombocytopenic and hematOPoietIC progenitor-deficient animals revealed that peripheral blood platelet counts and bone marrow hematopolietic progenitors could be fully reconstituted by the lung transplant procedure.
Journal ArticleDOI
Infection of lung megakaryocytes and platelets by SARS-CoV-2 anticipate fatal COVID-19
Aiwei Zhu,F. Real,Claude Capron,Arielle R. Rosenberg,Aymeric Silvin,Garett Dunsmore,Jaja Zhu,Andréa Cottoignies-Callamarte,Jean-Marc Massé,Pierre Moine,Simon Bessis,Mathieu Godement,Guillaume Geri,Jean-Daniel Chiche,Silvana Valdebenito,Sandrine Belouzard,Jean Dubuisson,Geoffroy Lorin de la Grandmaison,Sylvie Chevret,Florent Ginhoux,Eliseo A. Eugenin,Djillali Annane,Elisabeth Cramer Bordé,Morgane Bomsel +23 more
TL;DR: In this article , the authors studied 52 patients with severe COVID-19 and demonstrated that circulating platelets of 19 out 20 non-survivor patients contain SARS-CoV-2 in robust correlation with fatal outcome.
Journal ArticleDOI
Rheumatoid arthritis, systemic lupus erythematosus and primary Sjögren's syndrome shared megakaryocyte expansion in peripheral blood.
Yukai Wang,Xuezhen Xie,Chengpeng Zhang,Miaotong Su,Sini Gao,Jing Wang,Changhao Lu,Qisheng Lin,Jianqun Lin,Marco Matucci-Cerinic,Daniel E. Furst,Guohong Zhang +11 more
TL;DR: In this article, the authors identify the common transcriptional profiling and composition of immune cells in peripheral blood in these autoimmune diseases (ADs) using bulk RNA-seq data for enrichment of biological processes, transcription factors (TFs) and deconvolution-based immune cell types from peripheral blood mononuclear cells (PBMCs) in 119 treatment-naive patients (41 RA, 38 pSS, 28 SLE and 12 polyautoimmunity) and 20 healthy controls.
References
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Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
Aravind Subramanian,Pablo Tamayo,Vamsi K. Mootha,Sayan Mukherjee,Benjamin L. Ebert,Michael A. Gillette,Amanda G. Paulovich,Scott L. Pomeroy,Todd R. Golub,Eric S. Lander,Jill P. Mesirov +10 more
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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Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
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TL;DR: Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
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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.
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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.
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Integrating single-cell transcriptomic data across different conditions, technologies, and species.
TL;DR: An analytical strategy for integrating scRNA-seq data sets based on common sources of variation is introduced, enabling the identification of shared populations across data sets and downstream comparative analysis.
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