Cross-tissue immune cell analysis reveals tissue-specific features in humans
Despite their crucial role in health and disease, our knowledge of immune cells within human tissues remains limited. Here, we surveyed the immune compartment of 15 tissues of six deceased adult donors by single-cell RNA sequencing and paired VDJ sequencing. To systematically resolve immune cell heterogeneity across tissues, we developed CellTypist, a machine learning tool for rapid and precise cell type annotation. Using this approach, combined with detailed curation, we determined the tissue distribution of 45 finely phenotyped immune cell types and states, revealing hitherto unappreciated tissue-specific features and clonal architecture of T and B cells. In summary, our multi-tissue approach lays the foundation for identifying highly resolved immune cell types by leveraging a common reference dataset, tissue-integrated expression analysis and antigen receptor sequencing.
Cross-tissue immune cell analysis reveals tissue-specific adaptations and clonal architecture in humans (Official HCA Publication)
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Analysis Portals
Project Label
clonalArchitectureHumansSpecies
Homo sapiens
Sample Type
specimens
Anatomical Entity
Organ Part
Selected Cell Types
Unspecified
Disease Status (Specimen)
normal
Disease Status (Donor)
normal
Development Stage
human adult stage
Library Construction Method
Nucleic Acid Source
single cell
Paired End
falseAnalysis Protocol
downstream_analysis, scrna_seq_processing, tcr_bcr_processingFile Format
Cell Count Estimate
357.2kDonor Count
12