Parallel Single-Cell Multiomics Analysis of Neonatal Skin Reveals the Transitional Fibroblast States that Restrict Differentiation into Distinct Fates

Abstract

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Niclosamide targets the dynamic progression of macrophages for the resolution of endometriosis in a mouse model

“…Single-cell transcriptomic analysis has provided an unprecedented high resolution of peritoneal immune cells including different subtypes of B cells, macrophages, and T cells. To share our data with other researchers, we have created a cloud-based web tool for easy gene searches, which does not require complicated computer programming skills 81 . The webpage for this tool is: https://kanakohayashilab.org/hayashi/en/mouse/peritoneal.immune.cells/ .…”

Single-cell chromatin landscapes of mouse skin development

“…We focused on the “gene activity” of the cluster and the marker gene of different cell-type to validate that the established dataset was indeed represented a hair follicle population. In E13.5, we found that clusters 0, 1 and 2 mainly expressed fibroblast markers of Twist2 28 and Col1a1 29 , clusters 3 and 8 expressed keratinocytes markers of Krt14 30 and Krt15 31 , cluster 4 expressed macrophages markers of Cd86 32 and Inpp5d 33 , cluster 5 expressed schwann markers of Sox5 6 and Sox10 34 , cluster 6 expressed blood vessels markers of Pecam1 35 and Kdr 36 , 37 , cluster 7 expressed muscle markers of Pax7 30 and Cdh15 38 . In E16.5, we detected that clusters 0, 2 and 6 expressed fibroblasts markers of Twist2 and Col1a1 , cluster 1 expressed keratinocytes markers of Krt14 and Krt15 , cluster 3 and 9 expressed blood vessels markers of Kdr and Flt4 36 , cluster 4 expressed lymphocytes markers of Cpa3 39 and Ccr8 40 , cluster 5 expressed macrophages markers of Cd86 and F13a1 41 , cluster 7 expressed muscle markers of Myod1 42 and Myog 43 , cluster 8 expressed schwann markers of Gpr17 and Lims2 6 , cluster 10 expressed melanocytes markers of Tyr 6 and Dct 44 , cluster 11 expressed melanocytes markers of Ctsd 6 and Lamp1 45 .…”

“…In E16.5, we detected that clusters 0, 2 and 6 expressed fibroblasts markers of Twist2 and Col1a1 , cluster 1 expressed keratinocytes markers of Krt14 and Krt15 , cluster 3 and 9 expressed blood vessels markers of Kdr and Flt4 36 , cluster 4 expressed lymphocytes markers of Cpa3 39 and Ccr8 40 , cluster 5 expressed macrophages markers of Cd86 and F13a1 41 , cluster 7 expressed muscle markers of Myod1 42 and Myog 43 , cluster 8 expressed schwann markers of Gpr17 and Lims2 6 , cluster 10 expressed melanocytes markers of Tyr 6 and Dct 44 , cluster 11 expressed melanocytes markers of Ctsd 6 and Lamp1 45 . In P0, we detected that clusters 0, 2, 3, 7 and 9 mainly expressed fibroblasts markers of Twist2 and Col1a1 , clusters 1, 4, 5, 6 and 8 expressed keratinocytes markers of Krt14 and Krt15 , cluster 10 expressed melanocyte markers of Pax3 6 and Plp1 46 , cluster 11 expressed blood vessels markers of Kdr and Cdh5 30 , whereas the cells of cluster 12 expressed pericytes markers of Ebf2 30 and Rgs5 47 . According to the gene activity of marker genes, the cells were classified into 6, 8 and 5 populations, respectively.…”

Mapping the Spatial Dynamics of the Human Oral Mucosa in Chronic Inflammatory Disease

“…We previously identified five distinct fibroblast populations in the human oral mucosa (Caetano et al, 2021); however, we found a small number of transcriptional differences which conditioned a successful mapping of these cells with traditional in situ techniques. Furthermore, scRNA-seq data does not capture cell fates but rather cell states with recent evidence suggesting that many fibroblast lineage markers reflect a fibroblast state (Thompson et al, 2021). In this study, we were able to map these fine-grained differences and observed distinct spatial enrichment.…”