Singleton Property
From Knoesis wiki
Contents
Singleton Property Resource Page
Singleton Property is a novel approach for making statements about statements in RDF without the use of RDF reification.
For the full paper of this approach, please refer to the WWW'14 paper at ACM
Projects Evaluating the Singleton Property
The singleton property approach has been evaluated at different teams. Here we list some of the projects that we are aware of.
Matvocab.org
Funded by the AFRL, this project is developing a collaborative framework, called MaterialsWay Wiki, for scientists to develop and integrate different vocabularies. The MaterialWays wiki is extended from MediaWiki to provide the annotation for the vocabulary terms.
The singleton property approach is adopted in the data model in order to represent the different definitions of the same term and their corresponding sources and licenses. The wiki is accessible at http://matvocab.org/wiki-dev/index.php/Main_Page The SPARQL endpoint of this project is accessible at http://matvocab.org/sparql
Bio Hackathon 2014
The singleton property approach has been discussed at the bio hackathon community [1]. As a candidate for modeling provenance about RDF assertion, it would be evaluated together with existing approaches in the task Standardization of RDF data and development of tools ontologies
PubChem RDF
The singleton property approach has been evaluated against other approaches at the PubChem team. A manuscript has been submitted to the ISWC evaluation track. The datasets created by the team are accessible at http://figshare.com/articles/Provenance_RDF_Models/1399197
Singleton Property Datasets
We implemented the Singleton Property approach in two datasets: BKR and YAGO2S.
BKR
The BKR datasets are implemented using five approaches: the singleton property (SP), the standard RDF reification (R) and three flavors C1, C2 and C3 of the PaCE.
BKR-SP
BKR-R
BKR-C1
BKR-C2
BKR-C3
YAGO2S-SP
We created the RDF-compliant version of YAGO2S using the singleton property approach. The file can be downloaded via yago2s-sp
Below is the complete set of generic properties and their singleton properties in the YAGO2S-SP.
Generic property Number of singleton property instances http://yago-knowledge.org/resource/extractionSource 32598374 http://www.w3.org/1999/02/22-rdf-syntax-ns#type 9019948 http://www.w3.org/2000/01/rdf-schema#label 4200036 http://yago-knowledge.org/resource/isPreferredMeaningOf 2886014 http://www.w3.org/2004/02/skos/core#prefLabel 2886010 http://yago-knowledge.org/resource/isLocatedIn 1262563 http://yago-knowledge.org/resource/hasGender 923364 http://yago-knowledge.org/resource/hasFamilyName 838669 http://yago-knowledge.org/resource/hasGivenName 827681 http://yago-knowledge.org/resource/wasBornOnDate 804816 http://yago-knowledge.org/resource/wasCreatedOnDate 713167 http://yago-knowledge.org/resource/occursSince 553116 http://yago-knowledge.org/resource/isAffiliatedTo 497263 http://yago-knowledge.org/resource/playsFor 412388 http://yago-knowledge.org/resource/hasLongitude 393717 http://yago-knowledge.org/resource/hasLatitude 393250 http://www.w3.org/2000/01/rdf-schema#subClassOf 382532 http://yago-knowledge.org/resource/diedOnDate 361443 http://yago-knowledge.org/resource/occursUntil 337116 http://yago-knowledge.org/resource/created 278455 http://yago-knowledge.org/resource/hasNumberOfPeople 230745 http://yago-knowledge.org/resource/hasWebsite 226393 http://yago-knowledge.org/resource/wasBornIn 218757 http://yago-knowledge.org/resource/happenedOnDate 208894 http://yago-knowledge.org/resource/happenedIn 194161 http://yago-knowledge.org/resource/hasArea 129920 http://yago-knowledge.org/resource/actedIn 127513 http://yago-knowledge.org/resource/hasWordnetDomain 87104 http://yago-knowledge.org/resource/hasWonPrize 73763 http://yago-knowledge.org/resource/byTransport 55871 http://yago-knowledge.org/resource/hasDuration 54741 http://yago-knowledge.org/resource/diedIn 54174 http://yago-knowledge.org/resource/hasHeight 50863 http://yago-knowledge.org/resource/isCitizenOf 46060 http://yago-knowledge.org/resource/wasDestroyedOnDate 42966 http://yago-knowledge.org/resource/directed 41811 http://yago-knowledge.org/resource/hasPopulationDensity 39408 http://yago-knowledge.org/resource/isConnectedTo 33834 http://yago-knowledge.org/resource/livesIn 33628 http://yago-knowledge.org/resource/hasMusicalRole 32681 http://yago-knowledge.org/resource/graduatedFrom 30389 http://yago-knowledge.org/resource/hasMotto 27643 http://yago-knowledge.org/resource/owns 26551 http://yago-knowledge.org/resource/isMarriedTo 26325 http://yago-knowledge.org/resource/influences 26306 http://yago-knowledge.org/resource/wroteMusicFor 24294 http://yago-knowledge.org/resource/hasWeight 21256 http://yago-knowledge.org/resource/hasPredecessor 20574 http://yago-knowledge.org/resource/hasSuccessor 18005 http://yago-knowledge.org/resource/hasChild 17695 http://yago-knowledge.org/resource/participatedIn 16833 http://yago-knowledge.org/resource/hasPages 15616 http://yago-knowledge.org/resource/hasISBN 10917 http://yago-knowledge.org/resource/isLeaderOf 10700 http://yago-knowledge.org/resource/hasLength 9010 http://yago-knowledge.org/resource/holdsPoliticalPosition 6029 http://yago-knowledge.org/resource/edited 5946 http://yago-knowledge.org/resource/hasAirportCode 5715 http://yago-knowledge.org/resource/worksAt 5134 http://yago-knowledge.org/resource/hasRevenue 4114 http://yago-knowledge.org/resource/isPoliticianOf 3752 http://yago-knowledge.org/resource/hasAcademicAdvisor 3340 http://yago-knowledge.org/resource/hasCapital 1937 http://yago-knowledge.org/resource/hasOfficialLanguage 964 http://yago-knowledge.org/resource/dealsWith 947 http://yago-knowledge.org/resource/hasBudget 717 http://yago-knowledge.org/resource/hasCurrency 667 http://yago-knowledge.org/resource/exports 579 http://yago-knowledge.org/resource/isKnownFor 500 http://yago-knowledge.org/resource/isInterestedIn 465 http://yago-knowledge.org/resource/imports 391 http://yago-knowledge.org/resource/hasTLD 270 http://yago-knowledge.org/resource/hasGDP 241 http://yago-knowledge.org/resource/hasExport 175 http://yago-knowledge.org/resource/hasExpenses 174 http://yago-knowledge.org/resource/hasImport 172 http://yago-knowledge.org/resource/hasInflation 155 http://yago-knowledge.org/resource/hasUnemployment 145 http://yago-knowledge.org/resource/hasEconomicGrowth 141 http://yago-knowledge.org/resource/hasGini 130 http://yago-knowledge.org/resource/hasPoverty 84 http://yago-knowledge.org/resource/hasImdb 9 http://yago-knowledge.org/resource/startedOnDate 8
Query Set A
Four sets of queries for R, C1, C2, and C3 are obtained from ProvenanceContextEntity We created an equivalent set of queries for SP approach as the following.
Q1
# Query 1:
# ------------------------------------------------------------------
# All statements for a given PMID (e.g., 17209178)
# ------------------------------------------------------------------
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
SELECT ?st_s_inst ?st_p_inst ?st_o_inst
FROM <http://mor.nlm.nih.gov/bkr_instances_sp>
WHERE {
?st_s_inst ?st_p_inst ?st_o_inst .
?st_p_inst provenir:derives_from bkr:PUBMED_99992-INST .
}
Q2
# Query 2: C0012963|STIMULATES|C0598981|2006-12-01|2008-12-01
# ------------------------------------------------------------------
# All sources for a given statement
# (Lipoproteins AFFECTS Inflammatory cell)
# ------------------------------------------------------------------
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
SELECT ?source_inst
FROM <http://mor.nlm.nih.gov/bkr_instances_sp>
WHERE {
meta:C0012963 ?st_p_inst meta:C0598981 .
?st_p_inst rdf:singletonPropertyOf sn:STIMULATES .
?st_p_inst provenir:derives_from ?source_inst .
}
Q3
# Query 3:
# ------------------------------------------------------------------
# Frequency by source for 1 statement
# ------------------------------------------------------------------
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
SELECT ?source_name count(?source_name)
FROM <http://mor.nlm.nih.gov/bkr_instances_sp>
FROM <http://mor.nlm.nih.gov/bkr_schema>
WHERE {
graph <http://mor.nlm.nih.gov/bkr_instances_sp> {
meta:C0006307 ?st_p_inst ?o .
?st_p_inst rdf:singletonPropertyOf sn:TREATS .
?st_p_inst provenir:derives_from ?source_inst .
?source_inst rdf:type ?source_cl .
} .
graph <http://mor.nlm.nih.gov/bkr_schema> {
?source_cl rdfs:label ?source_name .
} .
}
Q4
# Query 4:
# ------------------------------------------------------------------
# Time profiling for a given statement
# ------------------------------------------------------------------
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
SELECT count(*)
FROM <http://mor.nlm.nih.gov/bkr_instances_sp>
FROM <http://mor.nlm.nih.gov/bkr_metadata>
WHERE {
graph <http://mor.nlm.nih.gov/bkr_instances_sp> {
meta:%s ?st_p_inst ?o .
?st_p_inst rdf:singletonPropertyOf sn:%s . FILTER (?o = meta:%s) .
?st_p_inst provenir:derives_from ?source_inst .
?source_inst rdf:type ?source_cl .
} .
graph <http://mor.nlm.nih.gov/bkr_metadata> {
?source_inst dc:date ?source_date .
FILTER(?source_date >= xsd:date("%s") && ?source_date < xsd:date("%s"))
}
}
Q5
# ------------------------------------------------------------------
# Time profiling for a given statement
# ------------------------------------------------------------------
# --Using functions
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
SELECT ?year count(*)
FROM <http://mor.nlm.nih.gov/bkr_instances_sp>
FROM <http://mor.nlm.nih.gov/bkr_schema>
FROM <http://mor.nlm.nih.gov/bkr_metadata>
where {
{
select (bif:year(?source_date)) as ?year
WHERE {
graph <http://mor.nlm.nih.gov/bkr_instances_sp> {
meta:%s ?st_p_inst ?o .
?st_p_inst rdf:singletonPropertyOf sn:%s . FILTER(?o = meta:%s) .
?st_p_inst provenir:derives_from ?source_inst .
?source_inst rdf:type ?source_cl .
} .
graph <http://mor.nlm.nih.gov/bkr_metadata> {
?source_inst dc:date ?source_date .
}
}
}
}
order by ?year
Query Set B
We created five equivalent sets of SPARQL queries for SP approach as the following.
Q1
Q1 - SP
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?s ?p ?o
where { graph <http://data.nlm.nih.gov/bkr_instances_sp>{
?s ?sp1 ?o .
?sp1 rdf:singletonPropertyOf ?p .
?sp1 provenir:derives_from pubmed:10979521-INST .
}}
;
Q1 - R
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
PREFIX bkr_sn: <http://mor.nlm.nih.gov/bkr/SEMNET_>
PREFIX bkr_meta: <http://mor.nlm.nih.gov/bkr/META_>
select ?s ?p ?o
where { graph <http://data.nlm.nih.gov/bkr_instances_r>{
?s ?p ?o .
?st rdf:type rdf:Statement .
?st rdf:subject ?s .
?st rdf:predicate ?p .
?st rdf:object ?o .
?st provenir:derives_from pubmed:10979521-INST .
}}
Q1 - C1
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?s ?p ?o
where { graph <http://data.nlm.nih.gov/bkr_instances_c1>{
?s_inst ?p_inst ?o_inst .
?s_inst rdf:type ?s .
?p_inst rdfs:subPropertyOf ?p .
?o_inst rdf:type ?o .
?s_inst provenir:derives_from pubmed:10979521-INST .
}}
Q1 - C2
</sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?s ?p ?o
where { graph <http://data.nlm.nih.gov/bkr_instances_c2>{
?s_inst ?p_inst ?o_inst .
?s_inst rdf:type ?s .
?p_inst rdfs:subPropertyOf ?p .
?o_inst rdf:type ?o .
?s_inst provenir:derives_from pubmed:10979521-INST .
?p_inst provenir:derives_from pubmed:10979521-INST .
}}
;
Q1 - C3
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?s ?p ?o
where { graph <http://data.nlm.nih.gov/bkr_instances_c3>{
?s_inst ?p_inst ?o_inst .
?s_inst rdf:type ?s .
?p_inst rdfs:subPropertyOf ?p .
?o_inst rdf:type ?o .
?s_inst provenir:derives_from pubmed:10979521-INST .
?p_inst provenir:derives_from pubmed:10979521-INST .
?o_inst provenir:derives_from pubmed:10979521-INST .
}}
;
Q2
Q2 - SP
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2
where { graph <http://data.nlm.nih.gov/bkr_instances_sp>{
meta:C0543467 ?sp1 ?o1 .
?sp1 rdf:singletonPropertyOf sn:TREATS .
?sp1 provenir:derives_from pubmed:10979521-INST .
?o1 ?sp2 ?o2 .
?sp2 rdf:singletonPropertyOf sn:CAUSES .
?sp2 provenir:derives_from ?pmid2 .
}}
;
Q2 - R
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
PREFIX bkr_sn: <http://mor.nlm.nih.gov/bkr/SEMNET_>
PREFIX bkr_meta: <http://mor.nlm.nih.gov/bkr/META_>
select ?o1 ?o2 ?pmid2
where { graph <http://data.nlm.nih.gov/bkr_instances_r>{
bkr_meta:C0543467-INST bkr_sn:TREATS ?o1 .
?st1 rdf:type rdf:Statement .
?st1 rdf:subject bkr_meta:C0543467-INST .
?st1 rdf:predicate bkr_sn:TREATS .
?st1 rdf:object ?o1 .
?st1 provenir:derives_from pubmed:10979521-INST .
?o1 bkr_sn:CAUSES ?o2 .
?st2 rdf:type rdf:Statement .
?st2 rdf:subject ?o1 .
?st2 rdf:predicate bkr_sn:CAUSES .
?st2 rdf:object ?o2 .
?st2 provenir:derives_from ?pmid2 .
}}
;
Q2 - C1
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2
where { graph <http://data.nlm.nih.gov/bkr_instances_c1>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
}}
;
Q2 - C2
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2
where { graph <http://data.nlm.nih.gov/bkr_instances_c2>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?p_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
?p_inst_2 provenir:derives_from ?pmid2 .
}}
;
Q2 - C3
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2
where { graph <http://data.nlm.nih.gov/bkr_instances_c3>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?p_inst_1 provenir:derives_from pubmed:10979521-INST .
?o_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
?p_inst_2 provenir:derives_from ?pmid2 .
?o_inst_2 provenir:derives_from ?pmid2 .
}}
;
Q3
Q3 - SP
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2 ?o3 ?pmid3
where { graph <http://data.nlm.nih.gov/bkr_instances_sp>{
meta:C0543467 ?sp1 ?o1 .
?sp1 rdf:singletonPropertyOf sn:TREATS .
?sp1 provenir:derives_from pubmed:10979521-INST .
?o1 ?sp2 ?o2 .
?sp2 rdf:singletonPropertyOf sn:CAUSES .
?sp2 provenir:derives_from ?pmid2 .
?o2 ?sp3 ?o3 .
?sp3 rdf:singletonPropertyOf sn:AFFECTS .
?sp3 provenir:derives_from ?pmid3 .
}}
;
Q3 - R
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
PREFIX bkr_sn: <http://mor.nlm.nih.gov/bkr/SEMNET_>
PREFIX bkr_meta: <http://mor.nlm.nih.gov/bkr/META_>
select ?o1 ?o2 ?pmid2 ?o3 ?pmid3
where { graph <http://data.nlm.nih.gov/bkr_instances_r>{
bkr_meta:C0543467-INST bkr_sn:TREATS ?o1 .
?st1 rdf:type rdf:Statement .
?st1 rdf:subject bkr_meta:C0543467-INST .
?st1 rdf:predicate bkr_sn:TREATS .
?st1 rdf:object ?o1 .
?st1 provenir:derives_from pubmed:10979521-INST .
?o1 bkr_sn:CAUSES ?o2 .
?st2 rdf:type rdf:Statement .
?st2 rdf:subject ?o1 .
?st2 rdf:predicate bkr_sn:CAUSES .
?st2 rdf:object ?o2 .
?st2 provenir:derives_from ?pmid2 .
?o2 bkr_sn:AFFECTS ?o3 .
?st3 rdf:type rdf:Statement .
?st3 rdf:subject ?o2 .
?st3 rdf:predicate bkr_sn:AFFECTS .
?st3 rdf:object ?o3 .
?st3 provenir:derives_from ?pmid3 .
}}
;
Q3 - C1
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2 ?o3 ?pmid3
where { graph <http://data.nlm.nih.gov/bkr_instances_c1>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
?s_inst_3 ?p_inst_3 ?o_inst_3 .
?s_inst_3 rdf:type ?o2 .
?p_inst_3 rdfs:subPropertyOf sn:AFFECTS .
?o_inst_3 rdf:type ?o3 .
?s_inst_3 provenir:derives_from ?pmid3 .
}}
;
Q3 - C2
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2 ?o3 ?pmid3
where { graph <http://data.nlm.nih.gov/bkr_instances_c2>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?p_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
?p_inst_2 provenir:derives_from ?pmid2 .
?s_inst_3 ?p_inst_3 ?o_inst_3 .
?s_inst_3 rdf:type ?o2 .
?p_inst_3 rdfs:subPropertyOf sn:AFFECTS .
?o_inst_3 rdf:type ?o3 .
?s_inst_3 provenir:derives_from ?pmid3 .
?p_inst_3 provenir:derives_from ?pmid3 .
}}
;
Q3 - C3
sparql
PREFIX bkr: <http://mor.nlm.nih.gov/bkr/>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
PREFIX provenir: <http://knoesis.wright.edu/provenir/>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX umls: <http://mor.nlm.nih.gov/umls/>
PREFIX meta: <http://mor.nlm.nih.gov/umls/META_>
PREFIX sn: <http://mor.nlm.nih.gov/umls/SEMNET_>
PREFIX pubmed: <http://mor.nlm.nih.gov/bkr/PUBMED_>
select ?o1 ?o2 ?pmid2 ?o3 ?pmid3
where { graph <http://data.nlm.nih.gov/bkr_instances_c3>{
?s_inst_1 ?p_inst_1 ?o_inst_1 .
?s_inst_1 rdf:type meta:C0543467 .
?p_inst_1 rdfs:subPropertyOf sn:TREATS .
?o_inst_1 rdf:type ?o1 .
?s_inst_1 provenir:derives_from pubmed:10979521-INST .
?p_inst_1 provenir:derives_from pubmed:10979521-INST .
?o_inst_1 provenir:derives_from pubmed:10979521-INST .
?s_inst_2 ?p_inst_2 ?o_inst_2 .
?s_inst_2 rdf:type ?o1 .
?p_inst_2 rdfs:subPropertyOf sn:CAUSES .
?o_inst_2 rdf:type ?o2 .
?s_inst_2 provenir:derives_from ?pmid2 .
?p_inst_2 provenir:derives_from ?pmid2 .
?o_inst_2 provenir:derives_from ?pmid2 .
?s_inst_3 ?p_inst_3 ?o_inst_3 .
?s_inst_3 rdf:type ?o2 .
?p_inst_3 rdfs:subPropertyOf sn:AFFECTS .
?o_inst_3 rdf:type ?o3 .
?s_inst_3 provenir:derives_from ?pmid3 .
?p_inst_3 provenir:derives_from ?pmid3 .
?o_inst_3 provenir:derives_from ?pmid3 .
}}
;
OWL 2 Compatibility
@prefix : <http://nlm.nih.gov/mesh/> . @prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> . @prefix owl: <http://www.w3.org/2002/07/owl#> . @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> . :Descriptor1 :co-occurs-1234 :Descriptor2 . :co-occurs-1234 :createdBy :Vinh . :co-occurs-1234 rdf:singletonPropertyOf :co-occurs . rdf:singletonPropertyOf rdfs:subPropertyOf rdf:type . :Descriptor rdf:type owl:Class . :User rdf:type owl:Class . :co-occurs rdf:type owl:Class . :co-occurs rdf:type owl:ObjectProperty . :createdBy rdf:type owl:ObjectProperty . :Descriptor1 rdf:type :Descriptor . :Descriptor2 rdf:type :Descriptor . :Vinh rdf:type :User . :co-occurs-1234 rdf:type owl:ObjectProperty . :co-occurs-1234 rdf:type :co-occurs .
