org.bridgedb.bio.datasources_headers.txt Maven / Gradle / Ivy

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# Column headers and brief descriptions for datasources.txt
#
# The term "conventional", as found in the descriptions below, refers to established usage norms for the BridgeDb project.
#  below refers to the identifier we are using for the concept.
#   The identifier is in the form of a URL (IRI).
#
# Tab-delimited table:				
#
# column	header	description	example_entry	http://www.w3.org/1999/02/22-rdf-syntax-ns#about	http://www.w3.org/1999/02/22-rdf-syntax-ns#datatype
1	datasource_name	Conventional name for datasource	Affy	http://vocabularies.bridgedb.org/ops#conventionalName	http://www.w3.org/2001/XMLSchema#string
2	system_code	Conventional 1-3 letter code for datasource	X	http://vocabularies.bridgedb.org/ops#systemCode	http://www.w3.org/2001/XMLSchema#string
3	website_url	URL to main webpage for datasource	http://www.affymetrix.com/	http://vocabularies.bridgedb.org/ops#mainUrl	http://www.w3.org/2001/XMLSchema#anyURI
4	linkout_pattern	URL pattern for constructing links to ID-specific datasource pages, using $id as substitution variable	https://www.affymetrix.com/LinkServlet?probeset=$id	http://vocabularies.bridgedb.org/ops#hasPrimaryUriPattern	http://www.w3.org/2001/XMLSchema#string
5	example_identifier	A valid example of a datasource identifier; may not be representative of all types of identifiers from a given resource	1851_s_at	http://vocabularies.bridgedb.org/ops#idExample	http://www.w3.org/2001/XMLSchema#string
6	entity_identified	Type of entity (e.g., biological molecule or concept) identified by datasource	probe	http://vocabularies.bridgedb.org/ops#type	http://www.w3.org/2001/XMLSchema#string
7	single_species	Specific species represented by datasource (latin genus species); blank if datasource represents more than one species	Homo sapiens	http://vocabularies.bridgedb.org/ops#aboutOrganism	http://www.w3.org/2001/XMLSchema#string
8	identifier_type	Conventional usage type for datasource: 1 = primary identifiers (used to uniquely identify molecules or concepts; useful for identifying entities on a pathway; useful targets for mapping measurement data), 0 = secondary identifiers (used to annotate molecules or concepts; useful as secondary linkouts; useful sources for data/annotation mapping)	0	http://vocabularies.bridgedb.org/ops#primary	http://www.w3.org/2001/XMLSchema#boolean
9	uri	Official URI for datasource (e.g., from miriam); or repeat of system_code if unknown or unregistered	urn:miriam:affy.probeset	http://www.w3.org/1999/02/22-rdf-syntax-ns#about	http://www.w3.org/2001/XMLSchema#anyURI
10	regex	Regular expression capturing all possible identifiers as narrowly as possible for datasource (see miriam)	\d{4,}((_[asx])?_at)?	http://vocabularies.bridgedb.org/ops#hasRegexPattern	http://www.w3.org/2001/XMLSchema#string
11	official_name	Official name of datasource resource; useful as an end-user display name; useful in name resolution	Affymetrix Probeset	http://vocabularies.bridgedb.org/ops#fullName	http://www.w3.org/2001/XMLSchema#string
12	wikidata_property	Property used by Wikidata to link identifers from external datasources to a Wikidata item	P2410	https://www.mediawiki.org/wiki/Wikibase/DataModel#Property	http://www.w3.org/2001/XMLSchema#string