[ { "@graph" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg", "@type" : [ "http://www.nanopub.org/nschema#Nanopublication" ], "http://www.nanopub.org/nschema#hasAssertion" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#assertion" } ], "http://www.nanopub.org/nschema#hasProvenance" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#provenance" } ], "http://www.nanopub.org/nschema#hasPublicationInfo" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#pubinfo" } ] } ], "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#Head" }, { "@graph" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#assertion", "@type" : [ "https://w3id.org/np/o/ntemplate/AssertionTemplate" ], "http://purl.org/dc/terms/description" : [ { "@value" : "

This nanopublication makes a statement that in the context of a thing of a certain type (e.g. a mouse), another thing of a certain type (e.g. a gene) tends to have a relation (such as causing) to another thing of a certain type (e.g. a disease) in the same context.

\r\n\r\n

Note that the context is not a reference to a general topic or field. It denotes the class for the context in which the relations happen. If each relation is happening in a human, for example, such as a certain condition leading to a certain symptom, then the context class should be 'human'.

\r\n\r\n

The technical background of the super-pattern can be found in this publication.

" } ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "Expressing a general claim with a super-pattern" } ], "https://w3id.org/np/o/ntemplate/hasStatement" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st0" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st1" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st2" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st3" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st4" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st5" }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st6" } ], "https://w3id.org/np/o/ntemplate/hasTag" : [ { "@value" : "Claims" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#contextClass", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "URI of the context class" } ], "https://w3id.org/np/o/ntemplate/possibleValue" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/UniversalContext" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "http://purl.org/nanopub/api/find_signed_things?type=http%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23Class&searchterm=" }, { "@value" : "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#label", "@type" : [ "https://w3id.org/np/o/ntemplate/LiteralPlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "informal label or text for the whole superpattern instance" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#objectClass", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "URI of the object class" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "http://purl.org/nanopub/api/find_signed_things?type=http%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23Class&searchterm=" }, { "@value" : "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#qualifier", "@type" : [ "https://w3id.org/np/o/ntemplate/RestrictedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "URI of the qualifier" } ], "https://w3id.org/np/o/ntemplate/possibleValue" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/alwaysQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canAlwaysQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canFrequentlyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canFrequentlyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canGenerallyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canGenerallyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canMostlyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canMostlyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canNeverQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canSometimesNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canSometimesQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/frequentlyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/frequentlyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/generallyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/generallyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/mostlyNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/mostlyQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/neverQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/sometimesNotQualifier" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/sometimesQualifier" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#relation", "@type" : [ "https://w3id.org/np/o/ntemplate/RestrictedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "URI of the relation type" } ], "https://w3id.org/np/o/ntemplate/possibleValue" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/affects" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/causes" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/contributesTo" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/cooccursWith" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/decreases" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/enables" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/follows" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasDifferentValueFrom" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasLargerValueThan" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasSameValueAs" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasSimilarValueAs" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasSmallerValueThan" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/includes" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/increases" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/inhibits" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/isCausedBy" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/isFollowedBy" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/isIncludedIn" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/isNecessaryAndSufficientFor" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/isSameAs" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/prevents" }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/requires" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi", "@type" : [ "https://w3id.org/np/o/ntemplate/IntroducedResource", "https://w3id.org/np/o/ntemplate/LocalResource" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "SPI: - this super-pattern instance" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st0", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/SuperPatternInstance" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/1999/02/22-rdf-syntax-ns#type" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st1", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#contextClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasContextClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st2", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#subjectClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasSubjectClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st3", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#qualifier" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasQualifier" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st4", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#relation" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasRelation" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st5", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#objectClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasObjectClass" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#st6", "http://www.w3.org/1999/02/22-rdf-syntax-ns#object" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#label" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#predicate" : [ { "@id" : "http://www.w3.org/2000/01/rdf-schema#label" } ], "http://www.w3.org/1999/02/22-rdf-syntax-ns#subject" : [ { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#spi" } ] }, { "@id" : "http://purl.org/np/RAcpME3OebcWJg2TOf9CYcAEJD5Dp1WFPkwDNdUBSA3Qg#subjectClass", "@type" : [ "https://w3id.org/np/o/ntemplate/GuidedChoicePlaceholder" ], "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "URI of the subject class" } ], "https://w3id.org/np/o/ntemplate/possibleValuesFromApi" : [ { "@value" : "http://purl.org/nanopub/api/find_signed_things?type=http%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23Class&searchterm=" }, { "@value" : "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" } ] }, { "@id" : "http://www.w3.org/1999/02/22-rdf-syntax-ns#type", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "This is a - links a thing (left) to a class it belongs (right)" } ] }, { "@id" : "http://www.w3.org/2000/01/rdf-schema#label", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "Informally, it can be shown as - links a formal identifier (left) to a human-readable name (right)" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/SuperPatternInstance", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "super-pattern instance - a statement that conforms to the super-pattern" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/UniversalContext", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "universal context (i.e. no context restriction) - The universal context is used in a super-pattern when the subject and object instances of a super-pattern statement happen outside of any obvious context entities (such as the context of \"organism\" in the case of genes affecting diseases)" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/affects", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "affects - the subject instance positively or negatively affects the intensity or frequency of the activity instance of the object" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/alwaysQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "always - true in 100% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canAlwaysQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can always - can be made true in 100% cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canFrequentlyNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can frequently not - can be made true in at most 90% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canFrequentlyQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can frequently - can be made true in at least 10% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canGenerallyNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can generally not - can be made true in at most 10% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canGenerallyQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can generally - can be made true in at least 90% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canMostlyNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can mostly not - can be made true in at most 50% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canMostlyQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can mostly - can be made true in at least 50% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canNeverQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can never - can be made true in 0% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canSometimesNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can sometimes not - can be made true in at most 99.9% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/canSometimesQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "can sometimes - can be made true in at least 0.1% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/causes", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "causes - the subject instance causes the existence of the object instance" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/contributesTo", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "contributes to - the subject instance positively affects the intensity or frequency of the activity instance of the object" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/cooccursWith", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "co-occurs with - the subject instance is close to the object instance in terms of space and time" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/decreases", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "decreases - the subject instance causes the value of the object instance to decrease" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/enables", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "enables - the subject instance causes the activity instance of the object to happen" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/follows", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "follows - the object instance came into existence before the subject instance" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/frequentlyNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "frequently not - true in at most 90% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/frequentlyQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "frequently - true in at least 10% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/generallyNotQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "generally not - true in at most 10% of cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/generallyQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "generally - true in at least 90% of the cases" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasContextClass", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "In the context of all things of type - specifies the context class (right) for the given super-pattern instance (left)" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasDifferentValueFrom", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "has different value from - the quantifiable subject instance has a value that is different from the quantifiable object instance" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasLargerValueThan", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "has larger value than - the quantifiable subject instance has a larger value than the quantifiable object instance" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasObjectClass", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "... to things of type - specifies the object class (right) for the given super-pattern instance (left)" } ] }, { "@id" : "https://w3id.org/linkflows/superpattern/terms/hasQualifier", "http://www.w3.org/2000/01/rdf-schema#label" : [ { "@value" : "... 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