214 studies
6,850,796 cells
With advances in single-cell genomics, molecular signatures of cells comprising the brain vasculature are revealed in unprecedented detail, yet the ageing-associated cell subtype transcriptomic changes which may contribute to neurovascular dysfunction in neurodegenerative diseases remain elusive. Here, we performed single-cell transcriptomic profiling of brain endothelial cells (EC) in young adult and aged mice to characterize their ageing-associated genome-wide expression changes. We identified zonation-dependent transcriptomic changes in aged brain EC subtypes, with capillary ECs exhibiting the most transcriptomic alterations. Pathway enrichment analysis revealed altered immune/cytokine signaling in ECs of all vascular segments, while functional changes impacting the blood-brain barrier (BBB) and... (continued)
"Sensitive spatial genome wide expression profiling at cellular resolution."Stickels, Murray et al., Biorxiv 2020.  https://www.biorxiv.org/content/10.1101/2020.03.12.989806v1Abstract: The precise spatial localization of molecular signals within tissues richly informs the mechanisms of tissue formation and function. Previously, we developed Slide-seq, a technology which enables transcriptome-wide measurements with 10-micron spatial resolution. Here, we report new modifications to Slide-seq library generation, bead synthesis, and array indexing that markedly improve the mRNA capture sensitivity of the technology, approaching the efficiency of droplet-based single-cell RNAseq techniques. We demonstrate how this modified protocol, which we have termed Slide-seqV2, can be used effectively in biological contexts where high detection... (continued)
This study contains the epithelial cells identified in a scRNA-seq dataset from lung tissue derived from surgical resection collected with Seq-Well S^3. We include for further investigation the epithelial subsets of the lung tissue which were the only subsets of cells in this dataset to express ACE2 and TMPRSS2. For all other cell subsets, we include only the expression of ACE2 and TMPRSS2. Note that since this is a pre-publication dataset, we only include cell types which express ACE2 and metadata relevant to this inquiry. The full dataset will be released at a later date. Contributors (listed alphabetically):  Alasdair Leslie, Ian Mbano, Alex K.... (continued)
ACE2 and TMPRSS2 most enriched within GSTA1+MGST3+ absorptive enterocytes in context of non-inflamed terminal ileumBetty Zheng*, Alison Yu*, Benjamin Doran*, Kayla Cribben, Ryan Fleming, Alexandria Narayan, Kayla Betz, Brandi Bratrude, Victor Tkachev, Alex Shalek#, Jose Ordovas-Montanes#, Leslie Kean#We collected single-cell RNA-seq data from biopsies of the human terminal ileum (epithelial and lamina propria) across 13 children diagnosed with functional gastrointestinal disease (without inflammation) and ranging in age 6-18 years old. Ileal absorptive epithelial cells appear significantly enriched for ACE2 and TMPRSS2 expression. Furthermore, we identify a subset (888 cells, ~6.5% of epithelial cells) which co-express both genes. By identifying rare co-expressing cells, we are... (continued)
We used previously unpublished NHP (Macaca mulatta) lung and small intestinal ileal tissue collected following necropsy of healthy adult animals with profiled with Seq-Well v1 to assess which cell types tissues represent natural targets of SARS-CoV-2. We saw that epithelial cells express ACE2 or co-express ACE2 and TMPRSS2. Note that this is a pre-publication dataset, so in this study we include expression of ACE2 and TMPRSS2 across all cells and expression of all genes in the ACE2+ subsets: epithelial cells of the lung and enterocytes in the ileum. Contributors (listed alphabetically): Shaina L. Carroll, Lucrezia Colonna, Leslie S. Kean, Alex K. Shalek,... (continued)

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