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| Status |
Public on Jan 17, 2023 |
| Title |
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung [ST] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The lung contains numerous specialized cell-types with distinct roles in tissue function and integrity. To clarify the origins and mechanisms generating cell heterogeneity, we created a comprehensive topographic atlas of early human lung development. Here, we report 83 cell states, several spatially-resolved developmental trajectories and predict cell interactions within defined tissue niches. We integrated scRNA-Seq and spatially resolved transcriptomics into a web-based, open platform for interactive exploration. We show distinct gene expression programs, accompanying sequential events of cell differentiation and maturation of the secretory and neuroendocrine cell-types in proximal epithelium. We define the origin of airway fibroblasts associated with airway smooth muscle in bronchovascular bundles and describe a trajectory of Schwann cell progenitors to intrinsic parasympathetic neurons controlling bronchoconstriction. Our atlas provides a rich resource for further research and a reference for defining deviations from homeostatic and repair mechanisms leading to pulmonary diseases.
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| Overall design |
One of the two lungs (preferentially the left), from each donor, was snap frozen in cryomatrix and further used for histological analyses. We cut 10-12μm-thick tissue sections with a cryostat (Leica CM3050S or analogue) and collected them onto poly-lysine coated slides (VWR Cat No. 631-0107)
NOTE FROM SUBMITTER: raw reads from our cohort are considered sensate and protected by GDPR regulations, and will therefore be uploaded to Swedish federated EGA.
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| Contributor(s) |
Sergio MS, Alexandros S, Paulo C, Christos S |
| Citation(s) |
36646791 |
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| Submission date |
Oct 17, 2022 |
| Last update date |
Jan 20, 2023 |
| Contact name |
Paulo Czarnewski |
| E-mail(s) |
czarnewski@gmail.com
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| Organization name |
KTH
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| Street address |
Tomtebodavägen 23b
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| City |
Solna |
| ZIP/Postal code |
171 65 |
| Country |
Sweden |
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| Platforms (3) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL30173 |
NextSeq 2000 (Homo sapiens) |
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| Samples (34)
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| GSM6645170 |
Lung,7,rep4 |
| GSM6645171 |
Lung,7,rep5 |
| GSM6645172 |
Lung,7,rep6 |
| GSM6645173 |
Lung,7,rep7 |
| GSM6645174 |
Lung,7,rep8 |
| GSM6645175 |
Lung,11,rep1 |
| GSM6645176 |
Lung,11,rep2 |
| GSM6645177 |
Lung,11,rep3 |
| GSM6645178 |
Lung,11,rep4 |
| GSM6645179 |
Lung,10,rep1 |
| GSM6645180 |
Lung,10,rep2 |
| GSM6645181 |
Lung,10,rep3 |
| GSM6645182 |
Lung,10,rep4 |
| GSM6645183 |
Lung,9,rep1 |
| GSM6645184 |
Lung,9,rep2 |
| GSM6645185 |
Lung,8,rep1 |
| GSM6645186 |
Lung,8,rep2 |
| GSM6645187 |
Lung,12,rep1 |
| GSM6645188 |
Lung,12,rep2 |
| GSM6645189 |
Lung,12,rep3 |
| GSM6645190 |
Lung,12,rep4 |
| GSM6645191 |
Lung,6,rep1 |
| GSM6645192 |
Lung,6,rep2 |
| GSM6645193 |
Lung,6,rep3 |
| GSM6645194 |
Lung,6,rep4 |
| GSM6645195 |
Lung,8.5,rep1 |
| GSM6645196 |
Lung,8.5,rep2 |
| GSM6645197 |
Lung,13.5,rep1 |
| GSM6645198 |
Lung,13.5,rep2 |
| GSM6645199 |
Lung,13.5,rep3 |
| GSM6645200 |
Lung,13.5,rep4 |
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| This SubSeries is part of SuperSeries: |
| GSE215898 |
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung |
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| Relations |
| BioProject |
PRJNA891257 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE215897_RAW.tar |
3.3 Gb |
(http)(custom) |
TAR (of TAR) |
| Processed data provided as supplementary file |
| Raw data not provided for this record |
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