PRISTA4D: Planarian Regenerative Interactive Spatiotemporal Transcriptomic Atlas in four Dimensions(Dataset ID: STDS0000399)

0
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75
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7
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Spots: 1,180,707,077
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Genes: 21,532
Summary
Visualization
Data
Related
Sample
Catalog
Dataset information
Contributors
Accessions
How to cite
Dataset information
Summary:
Animal bodies exhibit intricate cellular organization, forming tissues, organs, and systems under precise morphogenetic guidance. While achieving molecular-level reconstruction of complete cell types and morphogen gradients throughout the entire animal is essential for comprehending pattern formation during development and regeneration, it remains unrealized. We construct a comprehensive molecular profile of animal bodies by employing spatial transcriptomic reconstruction across regeneration timepoints in planarians, unveiling the dynamics of regeneration-responsive spatial domains and genes at the molecular level. We decode the spatial gene expression patterns underlying positional gradients along the body axes, tracking their changes throughout regeneration. Our study captures complete cell types and positional information in animals, elucidating the regulatory principles of scalable, self-organized regenerative patterns potentially universal across diverse phyla.
Overall design:
PRISTA4D database has a total of 370 coronal sections from CIW4 planarian uninjured animal and regenerative animals at 0 hpa, 12 hpa, 36 hpa, 3 dpa, 5 dpa, 7 dpa, 10 dpa and 14 dpa, with each stage represented by two animals. For each individual, serial sections were collectted and profiled with Stereo-seq transcriptome sequencing. Digital 3D whole-body animals were re-constructed.
Technology:
Stereo-Seq | stomics
Platform:
DNBSEQ-T1
Tissues:
whole body
Submission date: 2026-05-22Update date: 2026-05-26
Sample number: 34Section number: 34
DOI: To be continue
Contributors
Kai Han|Mengyang Xu|Lidong Guo|Yao Li
Contact: hankai@genomics.cn
Accessions
Database: PRISTA4D
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] Kai Han|Mengyang Xu|Lidong Guo|Yao Li. PRISTA4D: Planarian Regenerative Interactive Spatiotemporal Transcriptomic Atlas in four Dimensions[DS/OL]. STOmicsDB, 2026[2026-05-22]. https://db.cngb.org/stomics/datasets/STDS0000399/. 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: Kai Han, Yuxiaofei Wang, Yao Li, Lidong Guo, Yue Chen, Xiawei Liu, Yaru Lin, Zhi Huang, Qun Liu et al., Wenjie Guo, 4D Single-Cell Spatial Transcriptomics Reveals Dynamic Morphogenetic Gradients and Regenerative Domains in Planarians, GigaScience, 2026;, giag064, https://doi.org/10.1093/gigascience/giag064