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Implemented figure F4 data. Fixes #58
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PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> | ||
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> | ||
PREFIX ASCTB-TEMP: <https://purl.org/ccf/ASCTB-TEMP_> | ||
PREFIX CL: <http://purl.obolibrary.org/obo/CL_> | ||
PREFIX FMA: <http://purl.org/sig/ont/fma/fma> | ||
PREFIX UBERON: <http://purl.obolibrary.org/obo/UBERON_> | ||
PREFIX ccf3d: <http://purl.org/ccf/latest/ccf.owl#> | ||
PREFIX ccf: <http://purl.org/ccf/> | ||
PREFIX ctpop: <https://cns-iu.github.io/hra-cell-type-populations-supporting-information/data/enriched_rui_locations.jsonld#> | ||
PREFIX dc: <http://purl.org/dc/terms/> | ||
PREFIX hubmap: <https://entity.api.hubmapconsortium.org/entities/> | ||
PREFIX rui: <http://purl.org/ccf/1.5/> | ||
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# 3d ref organ | #meshes tagged with UBERON ID | total number of tissue blocks | sex | number of datasets | ||
SELECT | ||
?organId | ||
?organ | ||
?sex | ||
(COUNT(DISTINCT(?refOrganAs)) as ?organ_as_count) | ||
(COUNT(DISTINCT(?rui_location)) as ?rui_location_count) | ||
(COUNT(DISTINCT(?dataset)) as ?dataset_count) | ||
FROM ctpop:graph | ||
WHERE { | ||
GRAPH ctpop:graph { | ||
?sample ccf:has_registration_location ?rui_location ; | ||
ccf:generates_dataset ?dataset . | ||
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[] a ccf:SpatialPlacement ; | ||
ccf:placement_for ?rui_location ; | ||
ccf:placement_relative_to ?refOrgan . | ||
} | ||
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GRAPH <https://purl.org/ccf/releases/2.2.1/ccf.owl> { | ||
?refOrgan ccf:has_reference_organ ?refOrgan ; | ||
ccf:representation_of ?organIri ; | ||
ccf:organ_owner_sex ?sex . | ||
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?refOrganAs ccf:has_reference_organ ?refOrgan . | ||
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?organIri rdfs:label ?organ . | ||
BIND(REPLACE(REPLACE(STR(?organIri), 'http://purl.obolibrary.org/obo/UBERON_', 'UBERON:'), 'http://purl.org/sig/ont/fma/fma', 'FMA:') as ?organId) | ||
FILTER(?refOrganAs != ?refOrgan) | ||
} | ||
} | ||
GROUP BY ?organId ?organ ?sex | ||
ORDER BY ?organ ?sex |
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organId,organ,sex,organ_as_count,rui_location_count,dataset_count | ||
FMA:57987,Set of lactiferous glands in right breast,Female,8,1,3 | ||
UBERON:0000955,brain,Female,104,1,1 | ||
UBERON:0000955,brain,Male,104,1,1 | ||
UBERON:0000948,heart,Male,16,16,52 | ||
UBERON:0000059,large intestine,Female,10,6,6 | ||
UBERON:0000059,large intestine,Male,10,24,24 | ||
UBERON:0004538,left kidney,Female,30,2,8 | ||
UBERON:0004538,left kidney,Male,26,11,28 | ||
UBERON:0000079,male reproductive system,Male,18,1,4 | ||
UBERON:0004539,right kidney,Female,28,6,11 | ||
UBERON:0004539,right kidney,Male,28,6,50 | ||
UBERON:0002108,small intestine,Female,10,8,8 | ||
UBERON:0002108,small intestine,Male,11,24,24 |