TY - JOUR
T1 - The human lung cell atlas
T2 - A high-resolution reference map of the human lung in health and disease
AU - Schiller, Herbert B.
AU - Montoro, Daniel T.
AU - Simon, Lukas M.
AU - Rawlins, Emma L.
AU - Meyer, Kerstin B.
AU - Strunz, Maximilian
AU - Vieira Braga, Felipe A.
AU - Timens, Wim
AU - Koppelman, Gerard H.
AU - Budinger, G. R.Scott
AU - Burgess, Janette K.
AU - Waghray, Avinash
AU - Van Den Berge, Maarten
AU - Theis, Fabian J.
AU - Regev, Aviv
AU - Kaminski, Naftali
AU - Rajagopal, Jayaraj
AU - Teichmann, Sarah A.
AU - Misharin, Alexander V.
AU - Nawijn, Martijn C.
N1 - Funding Information:
Supported by the Helmholtz Association and the German Center for Lung Research (DZL) (H.B.S.); the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement 753039 (L.M.S.); U.K. Medical Research Council grant G0900424 (E.L.R.); National Institutes of Health (NIH) grants ES013995, HL071643, and AG049665, and Veterans Administration grant BX000201 and Department of Defense grant PR141319 (G.R.S.B.); NIH grants HL135124 and AI135964 and Department of Defense grant PR141319 (A.V.M.); NIH grants R01HL141852, R01HL127349, UHHL3123886, U01HL122626, and UG3TR002445, and Department of Defence grant PR151124 (N.K.); and the Netherlands Lung Foundation grants 5.1.14.020 and 4.1.18.226 (M.C.N.).
Funding Information:
The opportunity to build a high-resolution single-cell and spatial atlas of the human body has generated enormous excitement in the scientific community. The global initiative to build the Human Cell Atlas, launched in 2016, now involves scientists from 62 countries, a number likely to increase. The HCA community is supported by many funding organizations and initiatives and organized into biological networks, including the Human Lung Cell Atlas. For example, in the specific area of the lung, the NIH has actively supported these efforts through programs, including LungMAP (94) in the healthy lung, and disease-focused programs, in particular the Cancer Moonshot Human Tumor Atlas Network (http://bit.ly/ NCI-HumanTumorAtlas). Moreover, recognizing these emerging initiatives and the importance of supporting this ambitious new vision, the NIH Common Fund recently launched the Human BioMolecular Atlas Program (HuBMAP), which includes the lung among its organs of focus (https://commonfund.nih.gov/ hubmap). Other relevant efforts are supported by the Medical Research Council (http://bit.ly/HCALungMRC) and Wellcome Trust (http://bit.ly/HCALungW) in the United Kingdom and by the Chan Zuckerberg Initiative (http://bit.ly/ HCALungCZI1). The Human Lung Cell Atlas will be built by integration of the datasets provided by these and other initiatives. Working within the HCA thus ensures integration and international coordination across multiple funded efforts. Indeed, the HCA design is inherently inclusive and open, allowing parallel initiatives to contribute to the Human Cell Atlas, leveraging expertise, data, and technological developments between projects, organ systems, institutes, and countries. Consequently, the infrastructure that is under development within the HCA consortium will have a scope and reach beyond any of the organ-specific atlases, making the HCA well suited for a truly community-wide effort toward establishing a Human Cell Atlas.
Funding Information:
Supported by the Helmholtz Association and the German Center for Lung Research (DZL) (H.B.S.); the European Union's Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement 753039 (L.M.S.); U.K. Medical Research Council grant G0900424 (E.L.R.); National Institutes of Health (NIH) grants ES013995, HL071643, and AG049665, and Veterans Administration grant BX000201 and Department of Defense grant PR141319 (G.R.S.B.); NIH grants HL135124 and AI135964 and Department of Defense grant PR141319 (A.V.M.); NIH grants R01HL141852, R01HL127349, UHHL3123886, U01HL122626, and UG3TR002445, and Department of Defence grant PR151124 (N.K.); and the Netherlands Lung Foundation grants 5.1.14.020 and 4.1.18.226 (M.C.N.). The authors thank Dana Pe9er and Jennifer Rood for discussions on the paper outline and feedback on the manuscript.
Publisher Copyright:
© 2019 by the American Thoracic Society.
PY - 2019
Y1 - 2019
N2 - 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.
AB - 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.
KW - Human Cell Atlas
KW - Single-cell RNA sequencing
KW - Spatial transcriptomics
KW - Systems biology
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U2 - 10.1165/rcmb.2018-0416TR
DO - 10.1165/rcmb.2018-0416TR
M3 - Review article
C2 - 30995076
AN - SCOPUS:85068373543
SN - 1044-1549
VL - 61
SP - 31
EP - 41
JO - American Journal of Respiratory Cell and Molecular Biology
JF - American Journal of Respiratory Cell and Molecular Biology
IS - 1
ER -
