Single-nucleus transcriptomic profiling of human skeletal muscle from healthy adults

Main

Cell Metadata

Type I Myonuclei

Ontology Term: slow muscle cellCL:0000189
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: extrafusal muscle fiberCL:0008046
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: MYH7, TNNI1, TNNT1, NEB, MYBPC1, ATP2A2
Canonical Marker Genes: ATP2A2, FKBP5, SOX6, TPM3, MLIP, MYBPC1, NEB, SVIL, TRDN, TTN
Rationale: Type I (slow-twitch) myonuclei were assigned based on enrichment of NEB, MYBPC1, TRDN, ATP2A2, GBE1, and MLIP, with NEB and MYBPC1 preferentially expressed compared to the type II cluster.

Set of Labels Description: Cell annotations were generated with scType using marker genes curated from related publications, and then manually reviewed and adjusted based on the top highly variable genes in each Leiden cluster.
Annotation Method: both
Algorithm Name: scType
Algorithm Version: v1
Algorithm URL: https://github.com/IanevskiAleksandr/sc-type

Ontology Term: slow muscle cellCL:0000189
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: unknown
Category Class of which the cell type is a subclass.: extrafusal muscle fiberCL:0008046
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: MYH7, TNNI1, TNNT1, NEB, MYBPC1, ATP2A2
Canonical Marker Genes: ATP2A2, FKBP5, SOX6, TPM3, MLIP, MYBPC1, NEB, SVIL, TRDN, TTN
Rationale: Type I (slow-twitch) myonuclei were assigned based on enrichment of NEB, MYBPC1, TRDN, ATP2A2, GBE1, and MLIP, with NEB and MYBPC1 preferentially expressed compared to the type II cluster.

Set of Labels Description: Cell annotations were generated with scType using marker genes curated from related publications, and then manually reviewed and adjusted based on the top highly variable genes in each Leiden cluster.
Annotation Method: both
Algorithm Name: scType
Algorithm Version: v1
Algorithm URL: https://github.com/IanevskiAleksandr/sc-type