obophenotype / provisional_cell_ontology

Draft cell type definitions from data - candidates for inclusion in CL
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Map brain regions from Silleti whole human brain transcriptomics paper to HBA #50

Open dosumis opened 1 year ago

dosumis commented 1 year ago

supplementary-material - table2

Column: Top three regions. Record location for all regions with > some threshold (say 5%). Regions should be mapped to DHBA CURIE - accession part of CURIEs match ID in column 1 of supp mat table 1.

Add comment for all: "Location assignment based on origin of cells in brain dissections with a cut-off of {x}% to account for dissection errors { add percentages here}."

hkir-dev commented 1 year ago

Brain regions records added with a configurable 10% threshold:

  - annotationProperty: some_soma_located_in
    var: HBA_1
    annotations:
      - annotationProperty: rdfsComment
        text: "%s"
        vars:
          - HBA_1_comment

Separate HBA columns used (HBA_1, HBA_2...) because DOSDP annotation tag that gets list as parameter is not allowing adding axiom annotations (HBA_1_comment)

    <owl:Axiom>
        <owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/PCL_0051427"/>
        <owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/PCL_0010063"/>
        <owl:annotatedTarget rdf:resource="http://purl.obolibrary.org/obo/HBA_4008"/>
        <rdfs:comment>Location assignment based on origin of cells in brain dissections with a cut-off of 10% to account for dissection errors Cerebral cortex: 10.0%.</rdfs:comment>
    </owl:Axiom>