ASRSSTA: Arabidopsis Shoot Regeneration Single-cell Spatiotemporal Transcriptomic Atlas(Dataset ID: STDS0000237)

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Spots: 73,514
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Genes: 32,345
Summary
Visualization
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Dataset information
Summary:
De novo shoot regeneration requires competent cells to relinquish root-associated identity and acquire shoot fate, but how this transition is organized remains unclear. Here, time-resolved single-nucleus and spatial transcriptomics resolve a temporally restricted, spatially organized transition during Arabidopsis shoot regeneration. This interval is partitioned into a competence-enriched core, an adjacent boundary, and surrounding founder/repatterning domains.
Overall design:
ASRSSTA database contains the following dataset: 1) snRNA-seq data, covering 6 time points from SIM 4 to SIM 16, contained 79,319 single-nucleus transcriptomes from root-drived callus; 2) Stereo-seq data, covering a total of 14 callus tissue sections with 8 sections at SIM 6, 4 sections at SIM 8 and 2 sections at SIM 10.
Technology:
snRNA-seq | Stereo-Seq
Platform:
DNBSEQ-T10
Species:
Arabidopsis thaliana
Tissues:
Callus
Update date: 2024-03-08
Sample number: 32Section number: 14
DOI: To be continue
Contributors
lijiming
Contact: lijiming@genomics.cn
Accessions
No results.
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] lijiming. ASRSSTA: Arabidopsis Shoot Regeneration Single-cell Spatiotemporal Transcriptomic Atlas[DS/OL]. STOmicsDB, . https://db.cngb.org/stomics/datasets/STDS0000237/. doi: xxxxxx
    #Format: {contributors}. {title}[DS/OL]. STOmicsDB, {the year of submission data}[{submission data}]. {dataset link}. doi: {doi ID}
  • Cite original data article:
    No results.