Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches (spatial)(Dataset ID: STDS0000128)

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Genes: 32,738
Summary
Visualization
Data
Analysis results
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Dataset information
Summary:
Analysis of CITE-seq data , Nuclei RNA-seq data and single cell RNA-seq data on CD45+ and CD45- cells isolated from the livers of mice fed a standard diet (SD) or western diet (WD; fat, cholesterol and sugar), from healthy and steatotic human livers, from hamster liver, pig liver, chicken liver, monkey liver and zebrafish liver. We also performed Spatial Transcriptomics analysis on heatlhy mouse livers, NAFLD mouse livers, healthy human livers and steatotic human livers.
Overall design:
Single cell RNA Seq = Liver CD45+ and CD45- cells derived from mice fed a standard diet (SD) or western diet (WD; fat, cholesterol and sugar). Liver CD45+ and CD45- cells derived from healthy and obese humans. 10 Visium Spatial Seq = mouse StSt liver, mouse StSt capsule, mouse NAFLD liver, human non-steatotic liver, human steatotic liver.
Technology:
10x Visium
Platform:
GPL24247, GPL24676
Species:
Mus musculus(mm10)
Homo sapiens(hg19)
Submission date: 2021-12-29Update date: 2022-01-13
Sample number: 15Section number: 15
DOI: To be continue
Contributors
Guilliams, Martin,Bonnardel, Johnny,Haest, Birthe,Vanderborght, Bart,Wagner, Camille,Remmerie, Annel
Contact: liesbet.martens@irc.vib-ugent.be
Accessions
GEO Series Accessions: GSE192741
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] Guilliams, Martin,Bonnardel, Johnny,Haest, Birthe,Vanderborght, Bart,Wagner, Camille,Remmerie, Annel. Spatial proteogenomics reveals distinct and evolutionarily-conserved hepatic macrophage niches (spatial)[DS/OL]. STOmicsDB, 2021[2021-12-29]. https://db.cngb.org/stomics/datasets/STDS0000128/. 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: Habenicht, Livia K L et al. “The C1q-ApoE complex: A new hallmark pathology of viral hepatitis and nonalcoholic fatty liver disease.” Frontiers in immunology vol. 13 970938. 6 Oct. 2022, doi:10.3389/fimmu.2022.970938