The Human Lung Cell Atlas: A High-Resolution Reference Map of the Human Lung in Health and Disease
Open accessAbstract
Lung disease accounts for every sixth death globally. Profiling the molecular state of all lung cell types in health and disease is currently revolutionizing the identification of disease mechanisms and will aid the design of novel diagnostic and personalized therapeutic regimens. Recent progress in high-throughput techniques for single-cell genomic and transcriptomic analyses has opened up new possibilities to study individual cells within a tissue, classify these into cell types, and characterize variations in their molecular profiles as a function of genetics, environment, cell–cell interactions, developmental processes, aging, or disease. Integration of these cell state definitions with spatial information allows the in-depth molecular description of cellular neighborhoods and tissue microenvironments, including the tissue resident structural and immune cells, the tissue matrix, and the microbiome. The Human Cell Atlas consortium aims to characterize all cells in the healthy human body and has prioritized lung tissue as one of the flagship projects. Here, we present the rationale, the approach, and the expected impact of a Human Lung Cell Atlas.
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A distinct, novel population of profibrotic alveolar macrophages is restricted to patients with fibrosis and had previously been identified in mice.
“identified a distinct, novel population of profibrotic alveolar macrophages restricted to patients with fibrosis which had previously been identified in mice5,6.”
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The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution
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- Authors
- Schiller, H. B., Montoro, D. T., Simon, L. M., Rawlins, E. L., Meyer, K. B., Strunz, M., Vieira Braga, F. A., Timens, W., Koppelman, G. H., Budinger, G. R. S., Burgess, J. K., Waghray, A., van den Berge, M., Theis, F. J., Regev, A., Kaminski, N., Rajagopal, J., Teichmann, S. A., Misharin, A. V., & Nawijn, M. C.
- Affiliations
- Helmholtz Munich (DE)
- Harvard University (US)
- University of Cambridge (GB)
- Wellcome Sanger Institute (GB)
- Wellcome Sanger Institute, Hinxton, Cambridge, United Kingdom
- University Medical Center Groningen (NL)
- Northwestern University (US)
- Groningen Research Institute for Asthma and COPD at the University of Groningen, University Medical Center Groningen, Groningen, the Netherlands
- Howard Hughes Medical Institute (US)
- Yale University (US)
- Corresponding author
- Nawijn, Martijn C.
- ORCID
- Venue
- American Journal of Respiratory Cell and Molecular Biology
- Publisher
- Oxford University Press (OUP)
- Published
- 2019-07-01
- Volume
- 61
- Issue
- 1
- Pages
- 31-41
- ISSN
- 1044-1549 (ISSN-L)
- 1535-4989
- PMC
- PMC6604220
- OpenAlex
- W2940024093
- Cited by
- 245
- References
- 100
- Citations by year
- 2026: 12 · 2025: 29 · 2024: 25 · 2023: 43 · 2022: 34 · 2021: 53 · 2020: 38 · 2019: 11
- FWCI
- 3.20
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- American Journal of Respiratory Cell and Molecular Biology (publishedVersion, cc-by-nc-nd)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- DSpace@MIT (Massachusetts Institute of Technology) (submittedVersion, cc-by-nc-nd)
- Site cant be reached (submittedVersion, other-oa)
- University of Groningen research database (University of Groningen / Centre for Information Technology) (submittedVersion, other-oa)
- PuSH - Publication Server of Helmholtz Zentrum München (submittedVersion)
- Apollo (University of Cambridge) (submittedVersion)
- Apollo
- Funders
- U.S. Department of Defense (PR141319)
- U.S. Department of Veterans Affairs (I01 BX000201)
- European Commission (753039, HORIZON2020)
- Deutsches Zentrum für Lungenforschung
- National Institutes of Health (1r56hl135124-01, UG3TR002445, AG‐049665, HL-071643, AI135964)
- Medical Research Council (MR/P009581/1, G0900424)
- National Institute on Aging (P01AG049665)
- National Heart, Lung, and Blood Institute (P01HL071643, R01HL141852, R56 HL135124, U01HL122626, R01HL127349)
- National Institute of Allergy and Infectious Diseases (U19AI135964)
- National Institute of Environmental Health Sciences (R01ES013995)
- National Center for Advancing Translational Sciences
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Health Sciences › Medicine › Physiology › Asthma and respiratory diseases
- Keywords
- lung cell types, single-cell transcriptomics, spatial transcriptomics, lung disease, tissue microenvironment, lung microbiome, lung development, lung aging, Human Cell Atlas
- MeSH terms
- Humans, Lung, Lung Diseases, Transcriptome
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Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
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