Spatial transcriptome uncovers the mouse lung architectures and functions(Dataset ID: STDS0000062)

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2,831
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405
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Genes: 116,011
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PMID: 35391793
Summary
Visualization
Data
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Dataset information
Summary:
Revealing the relationships between the tissue structures and transcriptomic information is significant for understanding the mechanisms and principles underpinning the biological processes in lung development and diseases. The widely transcriptomic technics, including bulk and single-cell RNA sequencing, cannot accurately restore the tissue location of the gene expression. The advanced spatial transcriptomic tools can fill this gap properly with in-situ RNA capturing and spatial barcode labeling and translating. However, the published spatial transcriptome data of lung is rare or low-quality. Here we harnessed the large-view and high-resolution capabilities of Stereo-seq, one of the most advanced spatial transcriptome tools, in a 5-week-old female mouse to uncover the lung functions with their tissue location resolved. We also found a gradient expression of a bunch of genes related to cell proliferation along the axis of the proximal-to-distal trachea. All the data provided by the study pave the way for further studies in lung development and disease in the future.
Overall design:
We applied Stereo-seq on a 5-week-old femal mouse following the manufacturer's protocol.
Technology:
Stereo-Seq
Platform:
DNBSEQ-T10
Species:
Mus musculus(mm10)
Tissues:
Lung
Cell types:
alveolar type II,alveolar type I,vein,ciliated,artery,fibroblast
Development stage:
5 weeks
Sex:
Female
Submission date: 2022-01-11Update date: 2022-01-11
Sample number: 1Section number: 3
DOI: To be continue
Contributors
Yujia Jiang,Shijie Hao
Contact: haoshijie@genomics.cn
Accessions
Project ID: CNP0002590
How to cite
  • Cite database of STOmicsDB:
    [1] Xu, Zhicheng et al. "STOmicsDB: a comprehensive database for spatial transcriptomics data sharing, analysis and visualization." Nucleic acids research vol. 52,D1 (2024): D1053-D1061. doi: 10.1093/nar/gkad933'
  • Cite visualization dataset:
    [2] Yujia Jiang,Shijie Hao. Spatial transcriptome uncovers the mouse lung architectures and functions[DS/OL]. STOmicsDB, 2022[2022-01-11]. https://db.cngb.org/stomics/datasets/STDS0000062/. doi: xxxxxx
    #Format: {contributors}. {title}[DS/OL]. STOmicsDB, {the year of submission data}[{submission data}]. {dataset link}. doi: {doi ID}
  • Cite original data article:
    Citation: Jiang, Yujia et al. “Spatial Transcriptome Uncovers the Mouse Lung Architectures and Functions.” Frontiers in genetics vol. 13 858808. 9 Mar. 2022, doi:10.3389/fgene.2022.858808