Achilles tendon atlas - muscle cells

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Cell Metadata

T cells

Ontology Term: T cellCL:0000084
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: T lymphocyte
Category Class of which the cell type is a subclass.: lymphocyteCL:0000542
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CD247, SKAP1, THEMIS, PTPRC, IL7R, TC2N, ANK3, INPP4B
Canonical Marker Genes: CD247, SKAP1, THEMIS, PTPRC, IL7R
Rationale: This cell was annotated manually using canonical T cell markers in the field (CD247, SKAP1, THEMIS, PTPRC, IL7R). We noticed TC2N, ANK3, INPP4B running differential expression.
Rationale DOI: https://doi.org/10.1113/JP287812 10.1126/science.abl519 https://doi.org/10.1038/s43587-024-00613-3

Set of Labels Description: Lineage annotations were determined by Louvain clustering at resolution 0.1. Each lineage (fibroblast, muscle, immune, stromal) was then subsetted and reclustered. Final annotation resolution was chosen according to expression of biological markers; smaller clusters were combined were appropriate
Annotation Method: manual

Ontology Term: T cellCL:0000084
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: T lymphocyte
Category Class of which the cell type is a subclass.: lymphocyteCL:0000542
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: CD247, SKAP1, THEMIS, PTPRC, IL7R, TC2N, ANK3, INPP4B
Canonical Marker Genes: CD247, SKAP1, THEMIS, PTPRC, IL7R
Rationale: This cell was annotated manually using canonical T cell markers in the field (CD247, SKAP1, THEMIS, PTPRC, IL7R). We noticed TC2N, ANK3, INPP4B running differential expression.
Rationale DOI: https://doi.org/10.1113/JP287812 10.1126/science.abl519 https://doi.org/10.1038/s43587-024-00613-3

Set of Labels Description: Lineage annotations were determined by Louvain clustering at resolution 0.1. Each lineage (fibroblast, muscle, immune, stromal) was then subsetted and reclustered. Final annotation resolution was chosen according to expression of biological markers; smaller clusters were combined were appropriate
Annotation Method: manual