bacterial genome annotation (E64)
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| language code | label | description | aliases | edit |
|---|---|---|---|---|
| en | bacterial genome annotation | schema for the bacterial genomes in Wikidata | edit | |
| ja | バクテリアゲノムのアノテーション | edit |
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX wds: <http://www.wikidata.org/entity/statement/>
PREFIX ontolex: <http://www.w3.org/ns/lemon/ontolex#>
PREFIX wdata: <http://www.wikidata.org/wiki/Special:EntityData/>
PREFIX p: <http://www.wikidata.org/prop/>
PREFIX wd: <http://www.wikidata.org/entity/>
PREFIX wdno: <http://www.wikidata.org/prop/novalue/>
PREFIX wdref: <http://www.wikidata.org/reference/>
PREFIX ps: <http://www.wikidata.org/prop/statement/>
PREFIX pq: <http://www.wikidata.org/prop/qualifier/>
PREFIX cc: <http://creativecommons.org/ns#>
PREFIX wdt: <http://www.wikidata.org/prop/direct/>
PREFIX wdv: <http://www.wikidata.org/value/>
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX dct: <http://purl.org/dc/terms/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX prov: <http://www.w3.org/ns/prov#>
PREFIX wdtn: <http://www.wikidata.org/prop/direct-normalized/>
PREFIX pqv: <http://www.wikidata.org/prop/qualifier/value/>
PREFIX prv: <http://www.wikidata.org/prop/reference/value/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX psv: <http://www.wikidata.org/prop/statement/value/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX geo: <http://www.opengis.net/ont/geosparql#>
PREFIX bd: <http://www.bigdata.com/rdf#>
PREFIX pqn: <http://www.wikidata.org/prop/qualifier/value-normalized/>
PREFIX pr: <http://www.wikidata.org/prop/reference/>
PREFIX prn: <http://www.wikidata.org/prop/reference/value-normalized/>
PREFIX psn: <http://www.wikidata.org/prop/statement/value-normalized/>
PREFIX schema: <http://schema.org/>
PREFIX wikibase: <http://wikiba.se/ontology#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX uniprotTax: <http://purl.uniprot.org/taxonomy/>
## UNDER DEVELOPMENT ##
## Schema proposal for Wikidata items related to bacterial strains of which its genome is sequenced
##
# example query:
# PREFIX wdno: <http://www.wikidata.org/prop/novalue/> SELECT * WHERE {?string wdt:P31 wd:Q855769 ; rdf:type wdno:P105 .}
start=@<bacterial_genome>
<bacterial_genome> EXTRA p:P31 {
#instance of
p:P31 { ps:P31 [wd:Q855769] };
#taxon name
p:P225 { ps:P225 xsd:string } ;
#parent taxon
p:P171 { ps:P171 EXTRA wdt:P31 {wdt:P31 [wd:Q16521]}} ;
#taxon rank
rdf:type [wdno:P105] ; # no value
#NCBI Taxonomy ID
p:P685 { ps:P685 xsd:string; psn:P685 [uniprotTax:~]; }; ## TODO add regex to identify identifier
#Gram staining
p:P2597 { ps:P2597 [
wd:Q632006 # Gram-negative (Q632006)
wd:Q857288 # Gram-positive (Q857288)
] } ?;
#GenBank Assembly accession
p:P4333 { ps:P4333 xsd:string }* ;
#Genome size
p:P2143 { ps:P2143 xsd:decimal }* ; ## should the annotation build not be known as well?
#habitat
p:P2974 { ps:P2974 [wd:~] }*;
#host
p:P2975 { ps:P2975 {wdt:P31 [wd:Q16521]}}* ;
# minimum viable temperature
p:P3251 { psv:P3251 @<#temperature_value> ; } ?;
# maximum viable temperature
p:P3252 { psv:P3252 @<#temperature_value> ; } ?;
#optimum viable temperature
p:P3253 { psv:P3253 @<#temperature_value> ; } ?;
}
<#temperature_value> {
wikibase:quantityAmount xsd:decimal ;
wikibase:quantityUnit [wd:Q25267] ;
}