Human intercostal skeletal muscle aging atlas (scRNA-seq and snRNA-seq, young vs aged)

Main

Cell Metadata

MuSC

Ontology Term: skeletal muscle satellite cellCL:0000594
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: satellite cell, myosatellite, SC, muscle stem cell
Category Class of which the cell type is a subclass.: muscle precursor cellCL:0000680
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: PAX7, MYF5, SPRY1
Canonical Marker Genes: PAX7, MYF5, NCAM1
Rationale: This cell was annotated manually using canonical markers in the field (PAX7, MYF5, SPRY1) for satellite cells. We noticed 3 additional smaller subsets of satellite cells by performing clustering and differential expression analysis within this cell type. These included TNFRSF12A+ subset with differential expression of TNFRSF12A, NOP16, NPTX2, FNDC4, MT1A genes, ICAM1+ subset with ICAM1, CXCL1, CXCL2, TNFAIP3, NFKBIZ, IRF1, IER3 and MYOG+ subset with MYOG, TNNI1, TNNT2, CKB, ACTC1, CLDN5 and MYOD1 expression.
Rationale DOI: 10.7554/eLife.51576 10.1186/s13395-020-00236-3 10.1038/s41598-019-57110-6 10.1016/j.molcel.2019.02.026 10.1242/dev.174177 10.1016/j.celrep.2017.10.080 10.1242/dev.183855

Set of Labels Description: Displayed cell annotations represent 43 coarse cell type clusters derived using combined manual and automatic annotation using CellTypist.
Annotation Method: both
Algorithm Name: CellTypist
Algorithm Version: v1.7
Algorithm URL: https://github.com/Teichlab/celltypist

Main

Cell Metadata

Ontology Term: skeletal muscle satellite cellCL:0000594
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: satellite cell, myosatellite, SC, muscle stem cell
Category Class of which the cell type is a subclass.: muscle precursor cellCL:0000680
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: PAX7, MYF5, SPRY1
Canonical Marker Genes: PAX7, MYF5, NCAM1
Rationale: This cell was annotated manually using canonical markers in the field (PAX7, MYF5, SPRY1) for satellite cells. We noticed 3 additional smaller subsets of satellite cells by performing clustering and differential expression analysis within this cell type. These included TNFRSF12A+ subset with differential expression of TNFRSF12A, NOP16, NPTX2, FNDC4, MT1A genes, ICAM1+ subset with ICAM1, CXCL1, CXCL2, TNFAIP3, NFKBIZ, IRF1, IER3 and MYOG+ subset with MYOG, TNNI1, TNNT2, CKB, ACTC1, CLDN5 and MYOD1 expression.
Rationale DOI: 10.7554/eLife.51576 10.1186/s13395-020-00236-3 10.1038/s41598-019-57110-6 10.1016/j.molcel.2019.02.026 10.1242/dev.174177 10.1016/j.celrep.2017.10.080 10.1242/dev.183855

Set of Labels Description: Displayed cell annotations represent 43 coarse cell type clusters derived using combined manual and automatic annotation using CellTypist.
Annotation Method: both
Algorithm Name: CellTypist
Algorithm Version: v1.7
Algorithm URL: https://github.com/Teichlab/celltypist