Lamina propria Fibroblasts (S1)
Ontology Term
- intestinal lamina propria fibroblastCL:4047023
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.- fibroblastCL:0000057
Ontology Assessment
Disagreements with any aspect of the Cell Ontology.- —
Marker Gene Evidence
Gene markers used by researcher to assign this cell annotation.- ADAMDEC1, ABCA8, FABP4
Rationale
- This label represents superficial lamina propria fibroblasts that are ADAMDEC1+, ABCA8+, FABP4+ and form the dominant fibroblast population across datasets and samples. FOS+ Fibroblast Lamina propria or Ribo(high) Fibroblast Lamina propria, and note an upper-lamina WNT4+ subset (Stroma_0_2) described in the literature, as well as plasma (IGHA+) and myeloid (C1S/C1R+) doublet-contaminated clusters. Taken together, the transcriptional program, high dataset and sample diversity, and literature on WNT4+ villus-oriented fibroblasts support a high-confidence lamina propria fibroblast identity, with FOS and ribosomal signatures reflecting activation state rather than separate cell types.
Inherited from hgca_celltype_v1
- Set of Labels Description
- Cell annotations based on two rounds of subclustering with scVI integration, sample_id as batch key. Cell annotations were refined by expert feedback based on "prelim annotation" on CAP. Prelim annotation is renamed "hgca_celltype_v0" here and the feedback on the "prelim annotation" is available by selecting a previous version of the Integrated Human Gut Atlas on CAP.
- Annotation Method
- both
- Algorithm Name
- scIB
- Algorithm Version
- 1.2.1
- Algorithm URL
- https://github.com/theislab/scib
