Single-Cell RNA-Seq Reveals that CD9 Is a Negative Marker of Glucose-Responsive Pancreatic β-like Cells Derived from Human Pluripotent Stem Cells

Scientists observed more CD9+C-PEPTIDE+ β cells in the fetal than in the adult cadaveric islets and more Ki67+ proliferating cells among CD9+ fetal β cells. Their experiments showed CD9 as a cell-surface marker for negative enrichment of glucose-responsive β-like cells differentiated from human PSCs.
[Stem Cell Reports]
Li, X., Yang, K. Y., Chan, V. W., Leung, K. T., Zhang, X.-B., Wong, A. S., Chong, C. C. N., Wang, C. C., Ku, M., & Lui, K. O. (2020). Single-Cell RNA-Seq Reveals that CD9 Is a Negative Marker of Glucose-Responsive Pancreatic β-like Cells Derived from Human Pluripotent Stem Cells. Stem Cell Reports, 0(0). https://doi.org/10.1016/j.stemcr.2020.09.009 Cite
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Single-Cell RNA-Seq Reveals that CD9 Is a Negative Marker of Glucose-Responsive Pancreatic β-like Cells Derived from Human Pluripotent Stem Cells

Researchers purified β-like cells for spontaneous formation of islet-like organoids against CD9, and found significantly more NKX6.1+MAFA+C-PEPTIDE+ β-like cells in the CD9− than in the CD9+ population.
[Cell Stem Cell]
Li, X., Yang, K. Y., Chan, V. W., Leung, K. T., Zhang, X.-B., Wong, A. S., Chong, C. C. N., Wang, C. C., Ku, M., & Lui, K. O. (2020). Single-Cell RNA-Seq Reveals that CD9 Is a Negative Marker of Glucose-Responsive Pancreatic β-like Cells Derived from Human Pluripotent Stem Cells. Stem Cell Reports, 0(0). https://doi.org/10.1016/j.stemcr.2020.09.009 Cite
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The Differential Immune Responses to COVID-19 in Peripheral and Lung Revealed by Single-Cell RNA Sequencing

Using single-cell RNA sequencing, researchers characterized the peripheral blood mononuclear cells from uninfected controls and COVID-19 patients and cells in paired broncho-alveolar lavage fluid.
[Cell Discovery]
The differential immune responses to COVID-19 in peripheral and lung revealed by single-cell RNA sequencing | Cell Discovery. (n.d.). Retrieved October 20, 2020, from https://www.nature.com/articles/s41421-020-00225-2 Cite
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A New Lymphoid-Primed Progenitor Marked by Dach1 Downregulation Identified with Single Cell Multi-Omics

Through single-cell RNA sequencing, researchers identified the expression of Dach1 and associated genes in this fraction as being coexpressed with myeloid/stem genes but inversely correlated with lymphoid genes.
[Nature Immunology]
Amann-Zalcenstein, D., Tian, L., Schreuder, J., Tomei, S., Lin, D. S., Fairfax, K. A., Bolden, J. E., McKenzie, M. D., Jarratt, A., Hilton, A., Jackson, J. T., Di Rago, L., McCormack, M. P., de Graaf, C. A., Stonehouse, O., Taoudi, S., Alexander, W. S., Nutt, S. L., Ritchie, M. E., … Naik, S. H. (2020). A new lymphoid-primed progenitor marked by Dach1 downregulation identified with single cell multi-omics. Nature Immunology, 1–11. https://doi.org/10.1038/s41590-020-0799-x Cite
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Assessment of Long Non-Coding RNA Expression Reveals Novel Mediators of the Lung Tumor Immune Response

Scientists identified the landscape of tumor-infiltrating immune cells in the context of long non-coding RNA, known regulators of gene expression. They examined the lncRNA profiles of lung adenocarcinoma tumors by interrogating RNA sequencing data from microdissected and non-microdissected samples.
[Scientific Reports]
Assessment of long non-coding RNA expression reveals novel mediators of the lung tumour immune response | Scientific Reports. (n.d.). Retrieved October 16, 2020, from https://www.nature.com/articles/s41598-020-73787-6 Cite
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Flow-Induced Transcriptomic Remodeling of Endothelial Cells Derived From Human Induced Pluripotent Stem Cells

Scientists used human induced pluripotent stem cell (hiPSC)-derived endothelial cells (ECs) and bulk- and single-cell RNA sequencing to study the effect of flow on the transcriptomic landscape of hiPSC-ECs and their heterogeneity.
[Frontiers in Physiology]
Helle, E., Ampuja, M., Antola, L., & Kivelä, R. (2020). Flow-Induced Transcriptomic Remodeling of Endothelial Cells Derived From Human Induced Pluripotent Stem Cells. Frontiers in Physiology, 11. https://doi.org/10.3389/fphys.2020.591450 Cite
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Transcriptome Dynamics of CD4+ T Cells during Malaria Maps Gradual Transit from Effector to Memory

In malaria-endemic regions, antimalarial chemoprevention protects long after its cessation and associates with effects on CD4+ T cells. Scientists applied single-cell RNA sequencing and computational modelling to track memory development during Plasmodium infection and treatment.
[Nature Immunology]
Transcriptome dynamics of CD4 + T cells during malaria maps gradual transit from effector to memory | Nature Immunology. (n.d.). Retrieved October 14, 2020, from https://www.nature.com/articles/s41590-020-0800-8 Cite
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Cell-Type-Specific 3D Epigenomes in the Developing Human Cortex

Scientists characterized cell-type-specific cis-regulatory chromatin interactions, open chromatin peaks, and transcriptomes for radial glia, intermediate progenitor cells, excitatory neurons, and interneurons isolated from mid-gestational samples of the human cortex.
[Nature]
Cell-type-specific 3D epigenomes in the developing human cortex | Nature. (n.d.). Retrieved October 14, 2020, from https://www.nature.com/articles/s41586-020-2825-4 Cite
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Two Subsets of Stem-Like CD8+ Memory T Cell Progenitors with Distinct Fate Commitments in Humans

Researchers identified two previously unrecognized subsets of clonally, epigenetically, functionally, phenotypically and transcriptionally distinct stem-like CD8+ memory T cells.
[Nature Immunology]
Galletti, G., De Simone, G., Mazza, E. M. C., Puccio, S., Mezzanotte, C., Bi, T. M., Davydov, A. N., Metsger, M., Scamardella, E., Alvisi, G., De Paoli, F., Zanon, V., Scarpa, A., Camisa, B., Colombo, F. S., Anselmo, A., Peano, C., Polletti, S., Mavilio, D., … Lugli, E. (2020). Two subsets of stem-like CD8 + memory T cell progenitors with distinct fate commitments in humans. Nature Immunology, 1–11. https://doi.org/10.1038/s41590-020-0791-5 Cite
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Second-Strand Synthesis-Based Massively Parallel scRNA-Seq Reveals Cellular States and Molecular Features of Human Inflammatory Skin Pathologies

Investigators used Seq-Well S3 (“Second-Strand Synthesis”) to chart the transcriptional landscape of five human inflammatory skin diseases, thus providing a resource for the further study of human skin inflammation.
[Immunity]
Hughes, T. K., Wadsworth, M. H., Gierahn, T. M., Do, T., Weiss, D., Andrade, P. R., Ma, F., de Andrade Silva, B. J., Shao, S., Tsoi, L. C., Ordovas-Montanes, J., Gudjonsson, J. E., Modlin, R. L., Love, J. C., & Shalek, A. K. (2020). Second-Strand Synthesis-Based Massively Parallel scRNA-Seq Reveals Cellular States and Molecular Features of Human Inflammatory Skin Pathologies. Immunity, 53(4), 878-894.e7. https://doi.org/10.1016/j.immuni.2020.09.015 Cite
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Microglia-Organized Scar-Free Spinal Cord Repair in Neonatal Mice

Scientists transplanted either neonatal microglia or adult microglia treated with peptidase inhibitors into spinal cord lesions of adult mice, and found that both types of microglia significantly improved healing and axon regrowth.
[Nature]
Li, Y., He, X., Kawaguchi, R., Zhang, Y., Wang, Q., Monavarfeshani, A., Yang, Z., Chen, B., Shi, Z., Meng, H., Zhou, S., Zhu, J., Jacobi, A., Swarup, V., Popovich, P. G., Geschwind, D. H., & He, Z. (2020). Microglia-organized scar-free spinal cord repair in neonatal mice. Nature, 1–6. https://doi.org/10.1038/s41586-020-2795-6 Cite
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