Update autogenerated docs

Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>

1 files changed, 71 insertions, 0 deletions

diff --git a/rdf-documentation/phenotype-metadata.md b/rdf-documentation/phenotype-metadata.md
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+# Phenotypes Metadata
+## 'phenotypes'
+
+## Generated Triples:
+
+The following SQL query was executed:
+
+```sql
+SELECT CONCAT(IFNULL(InbredSet.Name, PublishXRef.InbredSetId), '_', PublishXRef.Id) AS Phenotype, InbredSet.Name, PublishXRef.Id, CONCAT(IFNULL(InbredSet.Name, PublishXRef.InbredSetId), '_', PublishXRef.Id) AS Phenotype, Phenotype.Post_publication_description, Phenotype.Post_publication_abbreviation, Phenotype.Lab_code, Phenotype.Submitter, Phenotype.Owner, IFNULL(PublishXRef.mean, '') AS mean, PublishXRef.Locus, IFNULL(PublishXRef.LRS, '') AS lrs, IFNULL(PublishXRef.additive, '') AS additive, PublishXRef.Sequence, IF(Publication.PubMed_ID IS NULL, '', CONVERT(Publication.PubMed_Id, INT)) AS pmid, Publication.Id FROM PublishXRef LEFT JOIN InbredSet ON InbredSet.InbredSetId = PublishXRef.InbredSetId LEFT JOIN Publication ON Publication.Id = PublishXRef.PublicationId LEFT JOIN Phenotype ON Phenotype.Id = PublishXRef.PhenotypeId WHERE PublishXRef.InbredSetId IN (SELECT PublishFreeze.InbredSetId FROM PublishFreeze)
+```
+
+The above query results to triples that have the form:
+
+```text
+gn:trait_phenotype -> rdf:type -> gnc:phenotype 
+gn:trait_phenotype -> gnt:belongsToSet -> gn:setInbredset_name 
+gn:trait_phenotype -> rdfs:label -> PublishXRef(Id) 
+gn:trait_phenotype -> skos:altLabel -> Phenotype 
+gn:trait_phenotype -> dct:description -> PhenotypePost_publication_description 
+gn:trait_phenotype -> gnt:abbreviation -> Phenotype(Post_publication_abbreviation) 
+gn:trait_phenotype -> gnt:labCode -> Phenotype(Lab_code) 
+gn:trait_phenotype -> gnt:submitter -> PhenotypeSubmitter 
+gn:trait_phenotype -> gnt:mean -> "mean"^^xsd:double 
+gn:trait_phenotype -> gnt:locus -> PublishXRef(Locus) 
+gn:trait_phenotype -> gnt:LRS -> "lrs"^^xsd:double 
+gn:trait_phenotype -> gnt:additive -> "additive"^^xsd:double 
+gn:trait_phenotype -> gnt:sequence -> "PublishXRef(Sequence)"^^xsd:integer 
+gn:trait_phenotype -> dct:isReferencedBy -> pubmed:pmid 
+gn:trait_phenotype -> dct:contributor -> PhenotypeOwner 
+```
+Here's an example query:
+
+```sparql
+PREFIX dct: <http://purl.org/dc/terms/> 
+PREFIX gn: <http://genenetwork.org/id/> 
+PREFIX owl: <http://www.w3.org/2002/07/owl#> 
+PREFIX gnc: <http://genenetwork.org/category/> 
+PREFIX gnt: <http://genenetwork.org/terms/> 
+PREFIX skos: <http://www.w3.org/2004/02/skos/core#> 
+PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> 
+PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> 
+PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> 
+PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/> 
+
+SELECT * WHERE { 
+    ?s rdf:type gnc:phenotype .
+    ?s gnt:belongsToSet gn:setBxd .
+    ?s rdfs:label "10001" .
+    ?s skos:altLabel "BXD_10001" .
+    ?s ?p ?o .
+}
+```
+
+Expected Result:
+
+```rdf
+gn:trait_bxd_10001 rdf:type gnc:phenotype .
+gn:trait_bxd_10001 gnt:belongsToSet gn:setBxd .
+gn:trait_bxd_10001 rdfs:label "10001" .
+gn:trait_bxd_10001 skos:altLabel "BXD_10001" .
+gn:trait_bxd_10001 dct:description "Central nervous system, morphology: Cerebellum weight, whole, bilateral in adults of both sexes [mg]" .
+gn:trait_bxd_10001 gnt:abbreviation "CBLWT2" .
+gn:trait_bxd_10001 gnt:submitter "robwilliams" .
+gn:trait_bxd_10001 gnt:mean "52.13529418496525"^^xsd:double .
+gn:trait_bxd_10001 gnt:locus "rs48756159" .
+gn:trait_bxd_10001 gnt:LRS "13.4974911471087"^^xsd:double .
+gn:trait_bxd_10001 gnt:additive "2.39444435069444"^^xsd:double .
+gn:trait_bxd_10001 gnt:sequence "1"^^xsd:integer .
+gn:trait_bxd_10001 dct:isReferencedBy pubmed:11438585 .
+```
+