Validate single-cell gene expression
cellxgene-contextskillsetup L2★35
ammawla/encode-toolkit ↗What it does
Query cell-type-specific gene expression data
Best for
Resolving cell-type contributions to bulk ENCODE regulatory signals using single-cell expression.
Inputs
- · Gene symbols/Ensembl IDs
- · Tissue (Cell Ontology term)
- · Cell-type filter
Outputs
- · Expression matrix
- · Cell-type rankings
- · Deconvolution summary
Requires
- · CellxGene Census API
- · cellxgene-census package
Preconditions
- · Valid gene IDs
- · Tissue in Cell Ontology
- · Census available
Failure modes
- · Gene not found
- · Cell-type missing
- · Spelling variation
Trust signals
- · Megill et al. 2021
- · CZ CELLxGENE official