2016 11-01 Workshop about research data archiving and open access publishing at the Research Council...
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Workshop on Open Publishing for Research Dataorganized by the Research Council of Norway (RCN)
GBIF data publication
Dag EndresenGBIF NorwayUiO Natural History Museum in OsloUniversity of Oslo
Lysaker, Oslo, November 1st 2016Slides: CC-BY-4.0, GBIF.no
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GBIF enables free and open access to biodiversity data online. We are an international government-initiated and -funded initiative focused on making biodiversity data available to all and anyone, for scientific research, conservation and sustainable development.
Status 26st October 2016
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GBIF provides a data discovery system
global registry data portal
that is dependent on resolvable stable identifiers for efficient functionality
3
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DATA PUBLISHED THROUGH GBIF.ORGOccurrence records (millions)
data
mob
iliza
tion
http://www.gbif.org | 6 JUN 2016
Jan-
08Ma
r-08
May-0
8Ju
l-08
Sep-
08No
v-08
Jan-
09Ma
r-09
May-0
9Ju
l-09
Sep0
9No
v-09
Jan-
10Ma
r-10
May-1
0Ju
l-10
Sep-
10No
v-10
Jan-
11Ma
r-11
May-1
1Ju
l-11
Sep-
11No
v-11
Jan-
12Ma
r-12
May-1
2Ju
l-12
Sep-
12No
v-12
Jan-
13Ma
r-13
May-1
3Ju
l-13
Sep-
13No
v-13
Jan-
14Ma
r-14
May-1
4Ju
l-14
Sep-
14No
v-14
Jan-
15Ma
r-15
May-1
5Ju
l-15
Sep-
15No
v-15
Feb-
16Ap
r-16
Jun-
16
100
150
200
250
300
350
400
450
500
550
600
650
700
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Asia (lack of data)
Africa (lack of data)
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MAP OF GBIF COUNTRY PARTICIPANTS
Norway became a (voting) GBIF member in February 2004. (Map last updated August 2016)
parti
cipa
tion
Asia (lack of data)
Africa (lack of data)
37 country members18 associate countries 3 affiliate networks39 organizations
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LICENSING FOR DATA PUBLISHED THROUGH GBIF
GBIF Governing Board decision in 2014 - three CC licensesStatus: set for all datasets published in GBIF since August 2016
• CC0 CC0 is recommended whenever possible
• CC BY with use guidelines specified by the owner
• CC BY-NC use is not for commercial purposes
http://www.gbif.org/newsroom/news/data-licensing-milestone & http://www.gbif.org/terms/licences
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GBIF Data portal
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GBIF DATA PORTAL
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All datasets in GBIF are assigned a dataset DOI
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Previous data downloads are listed from the user profile
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Data citationwith DOI
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SCHOLARLY DATA CITATION IS GOOD RESEARCH PRACTICE
• Data citation integrated part of the scholarly system• Supporting research validation and reproducibility• Enable reuse of research output and results• Tracking impact of published data• Scholarly structure to reward and credit people
involved in producing research data
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DOI – DIGITAL OBJECT IDENTIFIER
Persistent resolvable identifiersStandard for scholarly journal papersSimplify citation of referencesUsed for measuring impact
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WHO HAS CITED YOUR DATA RESOURCE?
CrossRef services link citations between scientific journal articlesWith CrossRef you can discover who has cited your research paper!
Services to link dataset citations (DataCite DOI) with CrossRef systemsTowards services in CrossRef to discover who cited your research data …
http://blog.crossref.org/?s=DataCite
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Data Publishers
Any tool
Publisher establishes DOI externally
Any tool
Publisher does not provide DOIPublisher uses IPT to register dataset with DataCite
IPT
National DataCite Service
GBIF.org
DataCite Denmark
GBIF registers datasets without existing DOIs
with DataCite Denmark
GBIF & DIGITAL OBJECT IDENTIFIERS (DOI)
GBIF dataset DOI launced in September 2014: http://vimeo.com/107148220#t=6m28s
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User searches for data through
GBIF.org
DataCite Denmark
GBIF.org
GBIF assigns DOIs to data downloads
Cleaned data
Data
Data attribution
Dataset DOI
Researcher
PaperPaper DOI
User deposits cleaned dataset in a repository and gets
DOI for dataset
Published paper can give
resolvable links to GBIF
download and/or to
cleaned dataset
User cleans data
User publishes
paper
GBIF download
Data
Data attribution
Download DOI
Download history
Download 1
. . .
GBIF.org creates a download data set
GBIF & DIGITAL OBJECT IDENTIFIERS (DOI)
GBIF dataset DOI launced in September 2014: http://vimeo.com/107148220#t=6m28s
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BIBSYS IS THE NORWEGIAN MEMBER IN DATACITE
"As a DataCite member BIBSYS act as a national DataCite representative in Norway and thereby allow all of Norway's higher education and research institutions to use DOI on their research data".
• Resource must be citation-worthy• Resource must have good metadata• Long-term archiving and accessibility for data
http://www.bibsys.no/rammeverk-for-doi/
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Services to enable data
analysis
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LIFEWATCH NORWAY
LifeWatch Virtual Research Environment (VRE)Proposal submitted for creating a LifeWatch Norway• LifeWatch.no proposal is based on the
robust GBIF infrastructure and GBIF data publishing services/mechanisms
• Creating new services and work-flows for analyzing ecological data
• Contribute to international GBIF standards for new data types
A LifeWatch Norway will substantially strengthen the societal benefits and capitalization of the Norwegian investments in GBIF.
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GBIF DATA PORTAL API
An interface to access data published through the GBIF network using web services.
http://api.gbif.org/v1/
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ROPENSCI : RGBIFlibrary(rgbif) key <- name_backbone(name='Hepatica nobilis', kingdom=‘Plantae')$speciesKeysp <- occ_search(taxonKey=key, return='data', hasCoordinate=TRUE, limit=1000)gbifmap(sp)
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CITATIONS IN PEER-REVIEWED RESEARCH
9 JUN 2016
data
use
Annual number of peer-reviewed publications using GBIF-mediated data
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GBIF Norwaywww.gbif.no
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DATA—BY GBIF PARTICIPANT
NOTE: Datasets are assigned to countries according to the location of the publishing institution, including aggregated datasets with contributors from many other countries. http://www.gbif.org | 09 JUN 2016
data
pub
lishi
ng
1. United States 3,348,499 6. Belgium 1,620423
2. Denmark 2,972,094 7. Netherlands 1,094,804
3. Germany 2,868,240 8. Australia 859,896
4. Norway 2,322,797 9. Costa Rica 810,035
5. Spain 2,238,363 10. South Africa 436,236
1. United States 271,901,500 6. Netherlands 24,241,092
2. Sweden 53,776,182 7. Norway 23,811,863
3. United Kingdom 49,786,646 8. Germany 22,151,479
4. France 39,896,982 9. Finland 16,612,735
5. Australia 37,489,401 10. Spain 13,630,866
Number of new records published—Top 10 participant Countries (1 to 31 May 2016)
Total number of records published—Top 10 Participant Countries (as of 31 May 2016)
Norway
Norway
Status May 2016
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Danmark Finland
Norway Sweden
Iceland
Oct. 2016 Datasets OccurrencesDenmark 66 + 1 10 905 213Finland 54 3 614 965Iceland 4 458 705Norway 115 + 2 22 431 281Sweden 42 + 1 53 791 566
STATUS FOR NORDIC GBIF NODES (DATA PUBLISHED FROM COUNTRY)
http:
//w
ww
.gbi
f.org
/cou
ntry
/NO
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Node team at NHM, University of OsloDag Endresen, Node manager Christian Svindseth, Data manager
Fridtjof Mehlum, Research directorEinar Timdal, Associate professor Geir Søli, Associate professor Vidar Bakken, Consultant
Artsdatabanken, TrondheimWouter KochNils Valland
NTNU University MuseumAnders Finstad, GBIF Science
committee
Research Council of NorwayPer Backe-Hansen, Head of delegation
Contact us at: [email protected]