Transcriptome profiling between unfavorable and favorable Wilms Tumors and against human fetal kidney(Dataset ID: STDS0000213)

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PMID: 37114795
Summary
Visualization
Data
Analysis results
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Dataset information
Summary:
Purpose: The 10x Genomics Visium platform allows us to define the spatial topography of gene expression and provides detailed molecular maps that overcome limitations associated with sn/scRNA-seq and microscopy-based spatial transcriptomics methods. The goals of this study are to compare and identify unique transcriptome profiling (RNA-seq) signature between unfavorable and favorable Wilms Tumors and against human fetal kidney. Methods: Human fetal kidney and Wilms tumor spatial topography of gene expression were generated using the 10X Visium platform Results: Using an optimized data analysis workflow, we mapped the reads to the hg38 genome build and grouped the spots into 9 clusters based on gene expression profiles. Conclusion: Our study represents the first implement of Visium technology in human fetal kidney and Wilms Tumor tissue, providing a number of important functional insights about the spatial and molecular definitions of cell populations across human fetal kidney and different subtypes of Wilms Tumor through analyzing gene expression within the intact spatial organization of the human samples.
Overall design:
Three total samples, one healthy fetal kidney and two Wilms tumor samples
Technology:
10x Visium
Platform:
Illumina NovaSeq 6000
Species:
Homo sapiens(hg38)
Tissues:
Kidney
Development stage:
16.6 GWA,6 years old,5 years old
Sex:
F/M
Submission date: 2021-06-16Update date: 2023-07-01
Sample number: 2Section number: 2
DOI: To be continue
Contributors
Core, AGCT,Perin, Laura
Accessions
GEO Series Accessions: GSE178349
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] Core, AGCT,Perin, Laura. Transcriptome profiling between unfavorable and favorable Wilms Tumors and against human fetal kidney[DS/OL]. STOmicsDB, 2021[2021-06-16]. https://db.cngb.org/stomics/datasets/STDS0000213/. 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: Petrosyan, Astgik et al. “Identification and Characterization of the Wilms Tumor Cancer Stem Cell.” Advanced science (Weinheim, Baden-Wurttemberg, Germany) vol. 10,20 (2023): e2206787. doi:10.1002/advs.202206787