Integrated Human Breast Cell Atlas v1.0 - all cells

T-lymphocyte

Ontology Term

T cellCL:0000084

Synonyms

Terms that have the same, or nearly the same, meaning as the selected cell type.

T cell, T-cell

Category

Class of which the cell type is a subclass.

lymphocyteCL:0000542

Ontology Assessment

Disagreements with any aspect of the Cell Ontology.

The 'T-lymphocyte' grouping includes NK/NKT cells (CL:0000623) alongside CD4+ and CD8+ T cells. NK cells are not strictly T lymphocytes; CL:0000084 (T cell) is used as the practical broad label for this lymphoid immune compartment.

Marker Gene Evidence

Gene markers used by researcher to assign this cell annotation.

GNLY, NKG7, GZMK, RGS1, GZMH, CCL20, KLRB1, RIPOR2, TRAC

Canonical Marker Genes

CD3D, CD3E, CD3G, TRAC, CD4, CD8A

Rationale

The 'T-lymphocyte' group was identified and annotated by Austin Reed, encompassing CD4+ T cells, CD8+ T cells, and NK/NKT cells. CD3D, CD3E, and TRAC are canonical pan-T cell markers used for identification.

Rationale DOI

10.1038/s41588-024-01688-910.1038/s41586-023-06252-9

Inherited from level1_annotation

Set of Labels Description

Cell annotations based on resolution broad clustering using the Leiden algorithm.

Annotation Method

manual