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European	
  GBIF	
  Nodes	
  	
  
mee2ng	
  in	
  Brussels	
  
8	
  to	
  10	
  April	
  2014	
  
Slides	
  prepared	
  fo...
Transcrip2on	
  of	
  label	
  informa2on	
  
Taking	
  Notes	
  from	
  Nature	
  
9	
  %	
  
29%	
  
45%	
  
8%	
  
9%	
  
Museum	
  specimens	
  
Vertebrater	
  
Planter	
  
insekter	
  
Invertebrater	
 ...
≈	
  8,5	
  mill	
  specimens	
  in	
  Norwegian	
  
collec2ons	
  of	
  natural	
  history	
  
Fungi:	
  
640	
  000	
  
...
Digi2zed	
  specimens	
  
Fungi:	
  640	
  000	
  
Vascular	
  plants:	
  	
  
2,2	
  mill	
  
Vertebrates:	
  670	
  000	...
Mass-­‐digi2za2on	
  at	
  NHM-­‐UiO	
  
•  3-­‐year	
  project	
  
– Start	
  in	
  2012	
  (dura2on	
  2013	
  to	
  201...
Vascular	
  plant	
  herbarium	
  (175	
  k	
  specimens)	
  
Transcrip2on	
  at:	
  	
  
Imaging	
  at:	
  
8 8	
  
Foto:	
  Digitarium	
  
Foto:	
  NHM-­‐UiO	
  
Packing	
  of	
  the	
  herbarium	
  in	
  Oslo,	
  Norway	
  
Un-­...
9
Status	
  in	
  March	
  2014:	
  
•  Cost	
  for	
  each	
  specimen:	
  
–  Tradi2onal	
  ca	
  40-­‐80	
  NOK	
  	
  
–...
Catalog	
  number:	
  O-­‐L-­‐000014,	
  hdp://purl.org/nhmuio/id/41d9cbb4-­‐4590-­‐4265-­‐8079-­‐ca44d46d27c3	
  
11	
  
hdp://purl.org/nhmuio/id/d91e8253-­‐0ac1-­‐4681-­‐ac69-­‐e50070af86a2	
  
12
Notes	
  from	
  Nature	
  
•  Find	
  the	
  label	
  and	
  
drag	
  a	
  box	
  around	
  it.	
  
•  Fill	
  in	
  label	
  
informa2on	
  using	
 ...
hdp://nhm2.uio.no/dugnad/transcribe
hdp://nhm2.uio.no/dugnad/transcribe
hdp://nhm2.uio.no/dugnad/transcribe
The	
  purpose	
  of	
  iden2fiers	
  
	
  
…is	
  to	
  name	
  things,	
  	
  
making	
  it	
  possible	
  to	
  refer	
 ...
UUID	
  QR	
  codes	
  for	
  museum	
  
objects	
  at	
  NHM-­‐UiO	
  provides:	
  
	
  
•  Machine-­‐readable	
  iden-fie...
hdp	
  –	
  PURL	
  –	
  UUID	
  	
  
hdp://purl.org/nhmuio/id/41d9cbb4-­‐4590-­‐4265-­‐8079-­‐ca44d46d27c3	
  
hdp://purl.org/nhmuio/id/UUID	
  	
  	
  	
  à	
  	
  	
  	
  hdp://gbif.no/resolver/UUID	
  	
  	
  
Custom	
  collec2on	
  portals	
  
Slide	
  by	
  David	
  Remsen	
  (2011)	
  
Artskart	
  
UiT	
  
UiB	
  
S&L	
  
Darwin	
  Core	
  	
  
Archive	
  
Collec2ons	
  and	
  data	
  sets	
  published	
  ...
GBIF	
  portal:	
  	
  
13,3	
  million	
  occurrences	
  are	
  located	
  in	
  Norway.	
  
Published	
  from	
  30	
  c...
GBIF	
  portal:	
  	
  
12,5	
  million	
  occurrences	
  published	
  form	
  Norwegian	
  ins2tutes.	
  
Covering	
  180...
Danmark	
   Finland	
  
Norway	
   Sweden	
  
Iceland	
  
Oct	
  2013	
   Data	
  set	
   Occurences	
  
Denmark	
   45	
 ...
Node	
  Personnel	
  
	
  
Dag	
  Endresen,	
  Node	
  Manager	
  	
  
Chris2an	
  Svindseth,	
  Database	
  manager	
  
F...
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
GBIF-Norway status for the 6th European GBIF nodes meeting April 2014
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GBIF-Norway status for the 6th European GBIF nodes meeting April 2014

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Slides prepared for the 6th European GBIF nodes meeting in Brussels. At the meeting these slides was replaced by a live online demo of these tools. Topics include citizen science transcription of specimen labels, persistent identifiers and custom collection portals. All slides are CC-by.

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Transcript of "GBIF-Norway status for the 6th European GBIF nodes meeting April 2014"

  1. 1. European  GBIF  Nodes     mee2ng  in  Brussels   8  to  10  April  2014   Slides  prepared  for  the  
  2. 2. Transcrip2on  of  label  informa2on   Taking  Notes  from  Nature  
  3. 3. 9  %   29%   45%   8%   9%   Museum  specimens   Vertebrater   Planter   insekter   Invertebrater   Sopp   11  %   47%   26%   6%   10%   Digi-zed  specimens   Vertebrater   Planter   insekter   Invertebrater   Sopp   2%   15%   44%   20%   19%   Number  of  species  in  Norway  (≈42k)   Vertebrater   Planter   insekter   Invertebrater   Sopp   4%   69%   13%   0%   14%   GBIF  (from  the  museum  collec-ons)   Vertebrater   Planter   insekter   Invertebrater   Sopp   Slide  by  Eirik  Rindal  (NHM-­‐UiO)  
  4. 4. ≈  8,5  mill  specimens  in  Norwegian   collec2ons  of  natural  history   Fungi:   640  000   Vascular  plants:   2,2  mill   Vertebrates:      670  000   Invertebrates:      600  000   Insects:      3,4  mill   Photos:  Karsten  Sund;  slide  by  Eirik  Rindal  (NHM-­‐UiO)   Paleontology:      900  000  
  5. 5. Digi2zed  specimens   Fungi:  640  000   Vascular  plants:     2,2  mill   Vertebrates:  670  000   Invertebrates:  600  000   Insects:  3,4  mill   Photos:  Karsten  Sund;  slide  by  Eirik  Rindal  (NHM-­‐UiO)   Paleontology:      900  000          ?  
  6. 6. Mass-­‐digi2za2on  at  NHM-­‐UiO   •  3-­‐year  project   – Start  in  2012  (dura2on  2013  to  2015)   – 3  mill  NOK  each  year  (≈365  000  €  /  year)   •  NHM-­‐UiO  vascular  plants  (240k  –  280k)   – Photo-­‐imaging  (high  resolu2on)   – QR-­‐barcoded  with  hdp-­‐PURL-­‐UUID  keys   – Registra2on  of  taxon  name  and  country   – Imported  to  MUSIT  DB  and  published  to  GBIF  
  7. 7. Vascular  plant  herbarium  (175  k  specimens)   Transcrip2on  at:     Imaging  at:  
  8. 8. 8 8   Foto:  Digitarium   Foto:  NHM-­‐UiO   Packing  of  the  herbarium  in  Oslo,  Norway   Un-­‐packing  of  the  herbarium  in  Joensuu,  Finland  
  9. 9. 9
  10. 10. Status  in  March  2014:   •  Cost  for  each  specimen:   –  Tradi2onal  ca  40-­‐80  NOK     –  Mass-­‐dig.  17,5  NOK   •  NHM-­‐UiO  vascular  plants   (240k  –  280k)   •  The  first  175k  specimens   are  now  ready   •  Images:  ca  15  terra  byte   •  50k  specimens  are   transcribed  (30%)   –  Taxon  and  country  
  11. 11. Catalog  number:  O-­‐L-­‐000014,  hdp://purl.org/nhmuio/id/41d9cbb4-­‐4590-­‐4265-­‐8079-­‐ca44d46d27c3   11  
  12. 12. hdp://purl.org/nhmuio/id/d91e8253-­‐0ac1-­‐4681-­‐ac69-­‐e50070af86a2   12
  13. 13. Notes  from  Nature  
  14. 14. •  Find  the  label  and   drag  a  box  around  it.   •  Fill  in  label   informa2on  using  the   provided  drop-­‐down   menu  or  free  text   input.   •  Each  label  is   transcribed  by  three   different  ci2zen   scien2sts  to  evaluate   accuracy.   •  NHM  UiO  has   launched  a  prototype   Norwegian   transcrip2on  portal,   based  on  the  NfN.  
  15. 15. hdp://nhm2.uio.no/dugnad/transcribe
  16. 16. hdp://nhm2.uio.no/dugnad/transcribe
  17. 17. hdp://nhm2.uio.no/dugnad/transcribe
  18. 18. The  purpose  of  iden2fiers     …is  to  name  things,     making  it  possible  to  refer  to  them.     What  is  an  iden2fier:     “Each  iden2fier  refers  to  one  and  only  one  thing”  (Coyle  2006).     “An  associa&on  between  a  string  and  a  thing”  (Kunze  2003).     “A  stated  associa&on  between  a  symbol  and  a  thing;  that  the  symbol   may  be  used  to  unambiguously  refer  to  the  thing  within  a  given   context”  (Campbell  2007).   19  
  19. 19. UUID  QR  codes  for  museum   objects  at  NHM-­‐UiO  provides:     •  Machine-­‐readable  iden-fiers.   •  Allows  for  new  and  efficient   workflows  for  collec2on   management.   •  Deployment  for  stable  iden-fiers   appropriate  for  data-­‐basing.   20  
  20. 20. hdp  –  PURL  –  UUID     hdp://purl.org/nhmuio/id/41d9cbb4-­‐4590-­‐4265-­‐8079-­‐ca44d46d27c3  
  21. 21. hdp://purl.org/nhmuio/id/UUID        à        hdp://gbif.no/resolver/UUID      
  22. 22. Custom  collec2on  portals   Slide  by  David  Remsen  (2011)  
  23. 23. Artskart   UiT   UiB   S&L   Darwin  Core     Archive   Collec2ons  and  data  sets  published  from  the  data  owner  as  one  single   Darwin  Core  archive  (DwC-­‐A).  Different  data  types  from  the  same  DwC-­‐ A  can  be  included  to  different  data  portals.   GBIF Portal   Opportunities with Darwin Core: Data portal for institute, region, or theme?   25  
  24. 24. GBIF  portal:     13,3  million  occurrences  are  located  in  Norway.   Published  from  30  countries  worldwide.  
  25. 25. GBIF  portal:     12,5  million  occurrences  published  form  Norwegian  ins2tutes.   Covering  180  countries  worldwide.  
  26. 26. Danmark   Finland   Norway   Sweden   Iceland   Oct  2013   Data  set   Occurences   Denmark   45   9  311  741   Finland   57   14  666  474   Iceland   4   458  705   Norway   85   12  531  207   Sweden   47   43  374  550   Status  Nordic  GBIF  data  sets  (data  hosted  by…)   33  
  27. 27. Node  Personnel     Dag  Endresen,  Node  Manager     Chris2an  Svindseth,  Database  manager   Fridtjof  Mehlum,  Research  Director   Einar  Timdal,  Associate  Professor     Vegar  Bakkestuen,  Senior  Scien2st   Geir  Søli,  Associate  Professor           Wouter  Koch,  Artsdatabanken   Nils  Valland,  Artsdatabanken   34  
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