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The Encyclopedia of Life,  BioDiversity Heritage Library, Biodiversity Informatics MBLWHOI Library Cathy Norton Deputy Director, BHL Massachusetts Library Association May 7, 2008
[object Object],[object Object]
[object Object]
Encyclopedia of Life ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Serine Molecule Biodiversity Heritage  Library Synthesis Center Field Museum Informatics Marine Biological Laboratory & MOBOT Education &  Outreach Smithsonian/Harvard Secretariat Smithsonian
This library serves the all of the scientific institutions in Woods Hole and other scientific groups in the area. The Library is facing a new dynamic phase
 
 
[object Object],[object Object],Mission: Provide Open Access to Biodiversity Literature Goals:
 
How big is the Biodiversity domain? ,[object Object],[object Object],[object Object],[object Object]
Why now? ,[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object],Benefits
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Benefits to the MBLWHOI Library
[object Object],[object Object],[object Object],[object Object],[object Object],Where are we now?
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object]
Levinus Vincent Elenchus tabularum, pinacothecarum,  1719   ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
The Long NOW Strategy Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808 Convention on Biological Diversity: Article 17 ,[object Object],[object Object],[object Object]
Biologia Centrali-American Physical Distribution… Now… you can Parse Date, harvest out data,  Wealth of informaiton locked on  the pages are now liberated!
Henry Walter Bates The Naturalist on the River Amazons , 1863 Most literature is in the developed world the Northern Hemisphere Most Biodiverstiy is in the developing world the Southern Hemisphere
Progne subis- Purple Martin   Illustrations of the nest and eggs of birds of Ohio , 1879-1886 Library and Laboratory: the Marriage of Research, Data and Taxonomic Literature London, February 2005 Eighty participants from 22 countries gathered to discuss the status and future of access to the taxonomic literature and to propose an agenda for actions that would improve the research environment for taxonomy. The participants were taxonomists; librarians; publishers; representatives of learned and professional societies, private foundations and government agencies; and specialists in information and communications technology. Scalable Mass Scanning Contracts Firewalls Security Loading Docks Trucks 180 mile round trip!
Internet Archive Scribe: Boston
Ernest Ingersoll   Hand-book to the National Museum … Smithsonian Institution , 1886 Mass Scanning Workflow Bid Lists Pick Lists Packing Lists Serials Management Monographic Management Stickers for Media and carts Rare Books-vaults
Jacob Christian Schäffer Elementa entomologica . . .  1766.  BHL Portal http://www.biodiversitylibrary.org Serve image and test files: create volume,  Part, piece, metadata; ingest page level  Metadata at scanning level; apply Globally Unique Identifiers (GUIDs) for linking to  Other taxonomic services.
Biodiversity Heritage Library
Biodiverstiy Informatics
“ All accumulated information of a species is tied to a scientific name, a name that serves as a link between what has been learned in the past and what we today add to the body of knowledge.” ~ Grimaldi & Engel, 2005, Evolution of the Insects
Who knowth not the name, knoweth not the subject Linnaeus, 1737, Critica Botanica n 210 .
[object Object],[object Object],[object Object],[object Object],[object Object],From T.E. Glover, The Fishes of Southwestern Japan, c.1870
The challenge for contemporary DIGITAL libraries Goal: Use one name to find the content for all names related to “that” species.
Names – the only universal metadata for Biology   Names offer a logical way to search for and index content ,[object Object],[object Object],[object Object]
Who is affected by these problems? Libraries Publishers Museums Federal Agencies
Serious challenges in federated environments One organism 4 scientific names 4 maps We want one map
Reuse, don’t rebuild
 
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Taxonomic intelligence is the inclusion of taxonomic practices, skills and knowledge within informatics services to manage information about organisms
[object Object],[object Object],[object Object],Specimen distribution data from remote sources
uBio Programmers BHL Taxonomic Intelligence Tool Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808
uBio ,[object Object],[object Object],[object Object]
Training and Improving the Algorithm
uBioRSS Taxonomically Intelligent RSS Feed Aggregator
uBioRSS Taxonomically Intelligent RSS Feed Aggregator
MBL WHOI Library – Woods Hole authors’ publications
MBL WHOI Library – Woods Hole species publications
Taxonomic intelligence works miracles! ,[object Object],[object Object],[object Object],[object Object]
Taxonomically intelligent scientific text parsing
 
 
[object Object],[object Object]
[object Object],[object Object]
 
Acknowledgments Catherine Norton Patrick Leary David Remsen Diane Rielinger David Patterson Neil Sarkar A.W. Mellon Foundation Alfred P. Sloan Foundation John D. & Catherine T. MacArthur Foundation Internet Archive Christopher Freeland Tom Garnett M artin Kalfatovic Graham Higley  BHL & EOL Teams
www.biodiversitylibrary.org www.eol.org www.ubio.org

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Mla May 7

  • 1. The Encyclopedia of Life, BioDiversity Heritage Library, Biodiversity Informatics MBLWHOI Library Cathy Norton Deputy Director, BHL Massachusetts Library Association May 7, 2008
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  • 5. Serine Molecule Biodiversity Heritage Library Synthesis Center Field Museum Informatics Marine Biological Laboratory & MOBOT Education & Outreach Smithsonian/Harvard Secretariat Smithsonian
  • 6. This library serves the all of the scientific institutions in Woods Hole and other scientific groups in the area. The Library is facing a new dynamic phase
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  • 21. Biologia Centrali-American Physical Distribution… Now… you can Parse Date, harvest out data, Wealth of informaiton locked on the pages are now liberated!
  • 22. Henry Walter Bates The Naturalist on the River Amazons , 1863 Most literature is in the developed world the Northern Hemisphere Most Biodiverstiy is in the developing world the Southern Hemisphere
  • 23. Progne subis- Purple Martin Illustrations of the nest and eggs of birds of Ohio , 1879-1886 Library and Laboratory: the Marriage of Research, Data and Taxonomic Literature London, February 2005 Eighty participants from 22 countries gathered to discuss the status and future of access to the taxonomic literature and to propose an agenda for actions that would improve the research environment for taxonomy. The participants were taxonomists; librarians; publishers; representatives of learned and professional societies, private foundations and government agencies; and specialists in information and communications technology. Scalable Mass Scanning Contracts Firewalls Security Loading Docks Trucks 180 mile round trip!
  • 25. Ernest Ingersoll Hand-book to the National Museum … Smithsonian Institution , 1886 Mass Scanning Workflow Bid Lists Pick Lists Packing Lists Serials Management Monographic Management Stickers for Media and carts Rare Books-vaults
  • 26. Jacob Christian Schäffer Elementa entomologica . . . 1766. BHL Portal http://www.biodiversitylibrary.org Serve image and test files: create volume, Part, piece, metadata; ingest page level Metadata at scanning level; apply Globally Unique Identifiers (GUIDs) for linking to Other taxonomic services.
  • 29. “ All accumulated information of a species is tied to a scientific name, a name that serves as a link between what has been learned in the past and what we today add to the body of knowledge.” ~ Grimaldi & Engel, 2005, Evolution of the Insects
  • 30. Who knowth not the name, knoweth not the subject Linnaeus, 1737, Critica Botanica n 210 .
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  • 32. The challenge for contemporary DIGITAL libraries Goal: Use one name to find the content for all names related to “that” species.
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  • 34. Who is affected by these problems? Libraries Publishers Museums Federal Agencies
  • 35. Serious challenges in federated environments One organism 4 scientific names 4 maps We want one map
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  • 40. uBio Programmers BHL Taxonomic Intelligence Tool Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808
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  • 42. Training and Improving the Algorithm
  • 43. uBioRSS Taxonomically Intelligent RSS Feed Aggregator
  • 44. uBioRSS Taxonomically Intelligent RSS Feed Aggregator
  • 45. MBL WHOI Library – Woods Hole authors’ publications
  • 46. MBL WHOI Library – Woods Hole species publications
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  • 54. Acknowledgments Catherine Norton Patrick Leary David Remsen Diane Rielinger David Patterson Neil Sarkar A.W. Mellon Foundation Alfred P. Sloan Foundation John D. & Catherine T. MacArthur Foundation Internet Archive Christopher Freeland Tom Garnett M artin Kalfatovic Graham Higley BHL & EOL Teams