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Add mappings to ontologies #78

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cconrad8 opened this issue Nov 27, 2023 · 0 comments
Closed

Add mappings to ontologies #78

cconrad8 opened this issue Nov 27, 2023 · 0 comments
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@cconrad8
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gf-dcc/portal#60

Cell metadata in obs (for ontology term IDs, the values MUST be the most specific term available from the specified ontology):
organism_ontology_term_id: NCBITaxon (NCBITaxon:9606for human, NCBITaxon:10090 for mouse)

donor_id: free-text identifier that distinguishes the unique individual that data were derived from. It is encouraged to be something not likely to be used in other studies (e.g. donor_1 is likely to not be unique in the data corpus)

development_stage_ontology_term_id: HsapDv if human, MmusDv if mouse, unknownif information unavailable

sex_ontology_term_id: PATO:0000384for male, PATO:0000383for female, or unknownif unavailable

self_reported_ethnicity_ontology_term_id: HANCESTRO use multiethnicif more than one ethnicity is reported. If human and information unavailable, use unknown. Use naif non-human.

disease_ontology_term_id: MONDO or PATO:0000461for 'normal'

tissue_ontology_term_id: UBERON

cell_type_ontology_term_id: CL

assay_ontology_term_id: EFO
single cell rna sequencing: EFO:0008913

@cconrad8 cconrad8 self-assigned this Nov 27, 2023
@anngvu anngvu closed this as completed Jul 26, 2024
@anngvu anngvu reopened this Jul 26, 2024
@anngvu anngvu closed this as not planned Won't fix, can't repro, duplicate, stale Jul 26, 2024
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