Metadata as Linked Data for Research Data Repositories

http://data.odw.tw
Metadata as Linked Data for Research Data Repositories
Cheng-Jen Lee, Andrea Wei-Ching Huang, Tyng-Ruey Chuang
Institute of Information Science, Academia Sinica, Taiwan
Analysis and synthesis of metadata goals for scientific data. Journal of the
American Society for Information Science and Technology 63(8): 1505–1520,
DOI: http://dx.doi.org/10.1002/asi.22683
The metadata of research data
increases the access to and
reuse of the data.
(Willis, Greenberg and White, 2012)
Analysis and synthesis of metadata goals for scientific data. Journal of the American
Society for Information Science and Technology 63(8): 1505–1520, DOI:
http://dx.doi.org/10.1002/asi.22683
INTRODUCTION
METHODS
Current research repositories can not
meet the needs of innovative solutions
providing feature-rich services for helping
data publishing such as visualization,
validation & reuse in different
applications.
(Assante, Candela, Castelli & Tani, 2016)
Are scientific data repositories coping with research data publishing?. Data Science
Journal, 15, p.6. DOI: http://doi.org/10.5334/dsj-2016-006
From 2014 to 2018, Stanford, Harvard,
and Cornell are collaboratively working on
linked data. The goal is to gather
contextual information about research
resources such as books, articles, serials,
datasets, and multimedia into a
semantic-web-based Scholarly Resource
Semantic Information Store (SRSIS).
https://www.ld4l.org/ and https://wiki.duraspace.org/display/ld4l/Project+Rationale
RESULTS
Voc4odw Ontology
http://voc.odw.tw
Before After
CULTURAL OBJECT
http://data.odw.tw/record/d2148340
1. An Use Case for Curation, Publication & Reuse
of Metadata as Linked Data.
2. A New Method to Manage Data for General-
use & Discipline-specific Repositories.
3. Data Semantically Enriched with Vocabularies and
Knowledge Bases via Adaptable Mechanisms.
o 843,309 CC licensed metadata
records of 14 domains reused from
the Union Catalog of Digital
Archives Taiwan.
o 44,806,400 triples (Linked Data)
encoded with Dublin Core 15
Elements and Provenance
Information.
o 25,913,304 triples from 832,803
records semantically refined with
spatial & temporal normalization,
mapping, and linking with domain
knowledges (external vocabularies,
ontologies. and knowledges bases).
o 14 domains include Archaeology,
Architecture, Archives, Artifacts,
Biology, Geology, Manuscript,
Multimedia, NewsMedia, PaintCal ,
RareBook, ResearchReuse, StoneRub.
o 80 projects and 74 agents associated
with metadata records are curated
by their linked data formats and
Wikidata ID: they have roles in NGO
(2), Museum (5), Library (2),
Government (9), Archive (1) and
Academia (55).
o For Open Science: using the CKAN
(Comprehensive Knowledge Archive
Network) as a major solution that
makes linked metadata available,
citable, and validated.
o Availability: data shared with
multiple formats, CSV, XML, Turtle,
RDF/XML, JSON-LD, consumed both
by human & machine.
o Validation and Reproducibility: each
data encoded with provenance in
details while at the same time a
complete mechanism for publishing
article, data and code is designed
and implemented.
o A flexible and adaptable ontology
for describing different data
context (common knowledge or
domain knowledge), event
concepts (people, place, time)
and objects collected by
meaningful groups of different
vocabularies is provided .
o Data Visualization is enhanced
and integrated through spatial
and temporal mapping, filtering
and linking system design.
o 18 international vocabularies used
for modeling common knowledge,
and 5 domain specific vocabularies
for place, time, art and humanity,
or biology are applied. 3
knowledge bases like GeoNames,
Wikidata, and Encyclopedia of Life
are mapped and linked.
o The use of SPARQL language and
endpoints provide data analytic
semantic queries both in local and
external. In addition, data from the
RDF triplestore can be easily used
in 3rd-party applications.
o Multiple DataClean Versions Mechanism: we treat
data cleaning as a kind of interpretation. Refined
Versions (R Versions i.e. r1, r2, r3… ) provide
different contexts to different needs of users.
o Multiple LinkedKnowledge Bases Mechanism:
more knowledge bases like DBpedia, WordCat, or
LinkedGeoData can be linked in future via different
R Versions without sacrificing the integrality of
the original Version, encoded with DC 15 .
o Multiple SemanticStructure Versions Mechanism:
different interpretations results from the use of
different vocabularies . Co-exists of multiple R
Versions with different vocabularies or
transforming vocabularies via SPARQL are
solutions.
@prefix agent: <http://data.odw.tw/agent/> .
@prefix cc: <http://creativecommons.org/ns#>.
@prefix data: <http://data.odw.tw/record/>.
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix dcat: <http://www.w3.org/ns/dcat#>.
@prefix dct: <http://purl.org/dc/terms/>.
@prefix gns: <http://sws.geonames.org/>.
@prefix project: <http://data.odw.tw/project/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix r4r: <http://guava.iis.sinica.edu.tw/r4r/> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#>.
@prefix schema: <http://schema.org/>.
@prefix voc: <http://voc.odw.tw/ontology#>.
@prefix xml: <http://www.w3.org/XML/1998/namespace>.
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
data:d2148340 a data:Reused,
r4r:RRObject,
dcat:Dataset ;
r4r:hasLicense <http://creativecommons.org/licenses/by-nc-nd/2.5/> ;
r4r:hasProvenance data:p20160530-d2148340 ;
r4r:locateAt data:d2148340 ;
dc:contributor "採集者: 呂文賓"^^rdf:PlainLiteral,
"採集者（英文）: Wen-Pen Leu"^^rdf:PlainLiteral ;
dc:coverage "國家: 台灣"^^rdf:PlainLiteral,
"最低海拔: 1650"^^rdf:PlainLiteral,
"行政區: 宜蘭縣大同鄉"^^rdf:PlainLiteral ;
dc:creator "鑑訂者: 吉占和"^^rdf:PlainLiteral ;
dc:date "採集日期: 1993-04-25"^^rdf:PlainLiteral ;
dc:identifier "標本館號: 43501"^^rdf:PlainLiteral,
"編目號: Wen-Pen Leu 2018"^^rdf:PlainLiteral ;
dc:language "中文"^^rdf:PlainLiteral ;
dc:publisher "中央研究院生物多樣性研究中心"^^rdf:PlainLiteral ;
dc:rights "中央研究院生物多樣性研究中心植物標本館 Herbarium, Research Center for Biodiversity, Academia Sinica, Taipei
(HAST)"^^rdf:PlainLiteral ;
dc:source "台灣本土植物資料庫（http://taiwanflora.sinica.edu.tw/）"^^rdf:PlainLiteral ;
dc:subject "屬: 一葉蘭屬"^^rdf:PlainLiteral,
"屬（英文）: Pleione"^^rdf:PlainLiteral,
"界: 植物界"^^rdf:PlainLiteral,
"界（英文）: Plantae"^^rdf:PlainLiteral,
"目: 天門冬目"^^rdf:PlainLiteral,
"目（英文）: Asparagales"^^rdf:PlainLiteral,
"科: 蘭科"^^rdf:PlainLiteral,
"科（英文）: ORCHIDACEAE"^^rdf:PlainLiteral,
"綱: 單子葉植物綱"^^rdf:PlainLiteral,
"綱（英文）: Monocotyledons"^^rdf:PlainLiteral,
"門: 種子植物門"^^rdf:PlainLiteral,
"門（英文）: Spermatophyta"^^rdf:PlainLiteral ;
dc:title "中文種名: 台灣一葉蘭"^^rdf:PlainLiteral,
"學名: Pleione formosana Hayata"^^rdf:PlainLiteral ;
dcat:themeTaxonomy data:Biology ;
prov:hadPrimarySource voc:CatalogRecord ;
prov:wasGeneratedBy project:q21095860 .
data:p20160530-d2148340 a data:Provenance,
r4r:Provenance,
prov:Activity ;
r4r:isPackagedWith data:d2148340 ;
prov:atLocation <http://sws.geonames.org/6728700> ;
prov:endedAtTime "2016-10-19T17:48:39.392807+08:00"^^xsd:DateTime ;
prov:startedAtTime "2016-10-19T17:48:39.388657+08:00"^^xsd:DateTime ;
prov:wasAssociatedWith <http://data.odw.tw>,
agent:q20872470 ;
prov:wasStartedBy <http://catalog.digitalarchives.tw/item/00/20/c7/f4.html> .
<http://catalog.digitalarchives.tw/item/00/20/c7/f4.html> a voc:CatalogRecord,
dcat:Catalog,
prov:Revision ;
cc:license <http://creativecommons.org/licenses/by-nc-nd/2.5/> ;
data:digiArchiveID "43501"^^rdf:PlainLiteral ;
data:objectID "2148340"^^rdf:PlainLiteral ;
schema:thumbnail <http://image.digitalarchives.tw/ImageCache/00/5b/4e/1e.jpg> ;
prov:generatedAtTime "2011-05-13"^^rdf:PlainLiteral ;
prov:hadPrimarySource <http://www.hast.biodiv.tw/specimens/SpecimenDetailC.aspx?specimenOrderNum=43501> ;
prov:value "內容主題:生物:植物界:種子植物門:單子葉植物綱:天門冬目:蘭科"@zh,
"典藏機構與計畫:中央研究院:生物多樣性研究中心:台灣本土植物數位化典藏"@zh ;
prov:wasGeneratedBy project:q21095859 .
<http://image.digitalarchives.tw/ImageCache/00/5b/4e/1e.jpg> a dct:MediaTypeOrExtent ;
prov:wasRevisionOf <http://img.hast.biodiv.tw/specimenSmall/specimenSmall004/3/S_043501.jpg> .
<http://www.hast.biodiv.tw/specimens/SpecimenDetailC.aspx?specimenOrderNum=43501> a voc:PrimarySource,
prov:PrimarySource .
<http://creativecommons.org/licenses/by-nc-nd/2.5/> a cc:License,
dct:RightsStatement ;
rdfs:label "CC2.5:BY-NC-ND"@en ;
rdfs:comment "ICON license"@en,
"MetaDesc license"@en .
data:d2148340 a data:Refined,
r4r:Data,
dcat:Dataset ;
r4r:hasProvenance data:p20160912-d2148340 ;
r4r:locateAt data:d2148340 ;
txn:hasEOLPage <http://eol.org/pages/1134120> ;
dct:requires evt84:event-d2148340,
evt84:phyCre-d2148340 ;
dcat:landingPage <http://data.odw.tw/r1/r1-r2148340> ;
dcat:themeTaxonomy data:Biology .
evt84:event-d2148340 a event:Event,
voc:UnKnownEvent ;
event:product dwc:Location,
schema:GeoShape,
voc:Object ;
dwc:minimumElevationInMeters "1650.0" ;
gn:parentCountry <http://sws.geonames.org/1668284> ;
gn:parentFeature <http://sws.geonames.org/1667637>,
<http://sws.geonames.org/1674197> ;
skos:inScheme dwc:Occurrence,
voc:Context ;
skos:scopeNote "something happened at some place" .
evt84:phyCre-d2148340 a schema:CreateAction,
voc:KnownEvent ;
event:factor dct:PhysicalResource,
voc:Object ;
event:product dwc:PreservedSpecimen,
voc:Object ;
dwc:eventDate "1993-04-25" ;
skos:editorialNote "採集日期" ;
skos:inScheme dwc:HumanObservation,
voc:Context ;
skos:scopeNote "specimen collection process" .
data:p20160912-d2148340 a data:Provenance,
r4r:Provenance,
prov:Activity ;
r4r:isPackagedWith data:d2148340 ;
prov:endedAtTime "2016-10-19T17:56:35.505929+08:00" ;
prov:startedAtTime "2016-10-19T17:56:35.498577+08:00" ;
prov:wasAssociatedWith <http://data.odw.tw>,
agent:q20872470 ;
prov:wasInfluencedBy r1:r1-r2148340 .
<http://eol.org/pages/1134120> a dwc:Taxon ;
rdfs:label "Pleione formosana" .
<http://sws.geonames.org/1667637> a voc:Place ; rdfs:label "Datong Xiang", "大同鄉" .
<http://sws.geonames.org/1668284> a voc:Place ; rdfs:label "Taiwan", "台湾" .
<http://sws.geonames.org/1674197> a voc:Place ; rdfs:label "Yilan", "宜蘭縣" .
Data in Different Contexts
Before 1993-04-25,
a natural plant may be recognized as
Pleione Formosana, “the plant”.
“The plant” was in somewhere around
Datong , Yilan, Taiwan.
A researcher, Wen-Pen Leu , took a
specimen collection activity on 1993-04-
25, and then made “the plant” as a
specimen for science. “The plant” has
been curated in the Herbarium,
Research Center For Biodiversity,
Academia Sinica, Taipei (HAST).
Since 2003, the HAST, have completed
the "Database of Native Plants in
Taiwan“, and digitalized “the plant” with
its image of herbarium specimen and
metadata information. “The plant “
becomes a science object served for
natural scientists via internet and web.
The HAST uses its own data schema to
store “the plant” fitting their database
and domain knowledge requirements.
Around 2011-05-13, the HAST
collaboratively worked with the Union
Catalog of Digital Archives Taiwan
(CATDAT). “The plant “ was then
converted its own data schema and
imported the metadata as a catalogue
record and a cultural object to CATDAT
based on Dublin Core 15 Elements.
A Reused Data:
“The Plant” is a derivation data, now as
a data:d2148340, (data:Reused)
modelled from the science and cultural
object of this Pleione Formosana.
It shares the meaning of the
r4r:RRObject in the R4R Ontology:
that any resource served as a
component for reuse is defined as a
Reusing Related Object (RRObject).
A Semantically Refined Data:
A derivation data, r1:r1-r2148340
(data:Refined), is extracted something
from the data:Reused as to enrich
semantics of the resource. Semantic
meanings of different interpretations
are provided from the conceptual
model. At the same time,
different interpretations or derivation
processes are curated in different
refined versions (ex. r1, r2, r3...).
A dcat:Dataset:
The data:d2148340 at data.odw.tw is a
collection of data (which includes
different versions of refined data),
published or curated by a single agent,
and is available for access or download
in one or more formats.
Pre-digitalContexts
Semantics in LOD Context
http://data.odw.tw/r1/r1-r2148340
data: d2148340 dwc:taxonRank
txn:taxonRank
biol:rank
界: 植物界
綱（英文）: Monocotyledons
目: 天門冬目
界（英文）: Plantae
目（英文）: Asparagales
屬（英文）: Pleione
屬: 一葉蘭屬
門（英文）: Spermatophyta
綱: 單子葉植物綱
門: 種子植物門
科: 蘭科
科（英文）: ORCHIDACEAE
Post-digitalContexts
SCIENCE OBJECT
THE STORY OF “THE PLANT” FOR HUMAN FOR MACHINE
FILTERING & VISUALIZATION FEATURES PROVIDED BY CKANHerbarium, Research Center for
Biodiversity, Academia Sinica
界（英文）: Plantae
界: 植物界
門（英文）: Spermatophyta
門: 種子植物門
綱（英文）: Monocotyledons
綱: 單子葉植物綱
目（英文）: Asparagales
目: 天門冬目
科（英文）: Orchidaceae
科: 蘭科
屬（英文）: Pleione
屬: 一葉蘭屬
Institute of Ecology and Evolutionary Biology,
College of Life Science, National Taiwan University
o 界（英文）:Plantae
o 界:植物界
o 門（英文）:Spermatophyta
o 門:胚胎植物門
o 綱（英文）:Angiospermae
o 綱:被子植物綱
o 目（英文）:Orchidales
o 目:蘭目
o 科（英文）:Orchidaceae
o 科:蘭科
o 屬（英文）:Pleione
o 屬:一葉蘭屬
o 種小名:bulbocodioides

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