Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2021 May 25;144(4):286–302. doi: 10.1161/CIRCULATIONAHA.120.052318

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© 2021 The Authors.

Circulation is published on behalf of the American Heart Association, Inc., by Wolters Kluwer Health, Inc. This is an open access article under the terms of the Creative Commons Attribution Non-Commercial-NoDerivs License, which permits use, distribution, and reproduction in any medium, provided that the original work is properly cited, the use is noncommercial, and no modifications or adaptations are made.

This article is made available via the PMC Open Access Subset for unrestricted re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the COVID-19 pandemic or until permissions are revoked in writing. Upon expiration of these permissions, PMC is granted a perpetual license to make this article available via PMC and Europe PMC, consistent with existing copyright protections.

PMC Copyright notice

Figure 1. — Overview of the study design and the integrated dataset. A, Overview of study design. Single-cell RNA sequencing (scRNAseq) data from control samples of 5 cohorts (Vanderbilt/Translational Genomics Research Institute [TGen]⁹: GSE135893, n=10; Northwestern¹¹: phs001750.v1.p1, n=8; Wellcome Sanger Institute [WSI]/Groningen¹⁰: EGAD00001005064 and EGAD00001005065, n=10; Leuven Vlaams Instituut voor Biotechnologie [VIB]¹²; E-MTAB-6149 and E-MTAB-6653, n=6; Yale/Baylor^13,39: GSE136831 and GSE133747, n=34) were integrated to form the lung cell dataset. The Yale-Baylor cohort includes 4 previously unreported samples (now published under GSE164829). All vascular endothelial cells (ECs) from samples in which ECs had been profiled (n=66) were integrated with addition of ECs from control samples of a sixth cohort of sorted lung ECs (Leuvens Kankerinstituut [LKI]¹⁴: E-MTAB-6308, n=7) to form the vascular EC dataset. Differential expression analysis of ECs revealed signatures corresponding to panendothelial, panvascular, and subpopulation-specific marker gene sets. EC subpopulations were localized by immunofluorescence and immunohistochemical microscopy and in situ hybridization. Potential homeostatic crosstalk of EC with other lung resident cell types was explored by ligand–receptor connectome analysis. scRNAseq data from 6 mouse cohorts were integrated to identify murine marker genes and conserved marker genes in humans and mice. B, Uniform manifold approximation and projection representation of the lung cell dataset of 278 648 cells from 68 control lungs; each dot represents a single cell, and cells are labeled as 1 of 37 discrete cell types. For uniform manifold approximation and projections colored by cohort and participant, refer to Figure IA in the Data Supplement. AM indicates alveolar macrophage; AT1/2, alveolar cell type 1/2; cDC1/2, classical dendritic cell type 1/2; cMono, classical monocyte; DC, dendritic cell; ILC, innate lymphoid cell; M, macrophage; ncMono, nonclassical monocyte; NK, natural killer; pDC, plasmacytoid dendritic cell; PNEC, pulmonary neuroendocrine cell; and SMC, smooth muscle cell.