Introducing Encyclopedia of Life version 2


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A talk given 18 October 2011 at TDWG 2011 (Biodiversity Informaticn Standards: Taxonomic Databases Working Group) in New Orleans, Louisiana.

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  • Global – the whole worldAccess – free, re-usableKnowledge – synthesized, not rawLife on Earth – biological diversity
  • Milions of pages with a name at least – more than 3 million -- more than 2 million data objects distributed on those pages, including over 400,000 images
  • Our development of EOLv2 is following this path – in version one we developed the core ability to aggregate and curate data. In version 2 we are ensuring that
  • EOL is a giant mashup that merges information that were created elsewhere on its pages which are then available for curators (mostly credentialed scientists) to trust or untrust and rate, or for anybody to provide comments or tags.We’re partnering with over a hundred scientific databases as well as public conribution sites like Flickr and Wikipedia.100+ partner databases700 curators/1000s contributors/46,000 members2.8 million pages500 thousand pages with Creative Commons contentOver 2 million data objects and >1 million pages with links to research literatureTraffic in past year: 1.7 million unique users, 6.2 million page views
  • Collections might be practical, like helping people learn more about the foods that we eat, like posting lists of wanted things, like this list of microorganisms found by Jessica Green in the air ducts of office buildings.Help people put their information in context that are meaningful to them.Do you want crowds to help annotate items in the collection with a controlled vocabulary? Do you want to know the average riches of pages in the collection?
  • Some communities are groups of people in the same geographic location. Some communities have a purpose – people interested in mlultilingual content can help find it and develop more content in their languages. Others may have a common biological group of interest.We’re hoping that communities will feel empowered to find and improve the content that is of interest to them. Thus expanding curation or quality control is an important feature to
  • Compare to Dawn Field’s: Metadata richness index
  • ExtensionLeveraging strengths
  • Overview › Brief SummaryOverview › Comprehensive DescriptionOverview › DistributionPhysical Description › MorphologyPhysical Description › SizePhysical Description › Diagnostic DescriptionPhysical Description › Type InformationPhysical Description › Look AlikesPhysical Description › DevelopmentEcology › HabitatEcology › MigrationEcology › DispersalEcology › Diseases and ParasitesEcology › Population BiologyEcology › General EcologyLife History and Behavior › BehaviorLife History and Behavior › CyclicityLife History and Behavior › Life CycleLife History and Behavior › ReproductionLife History and Behavior › GrowthEvolution and Systematics › EvolutionEvolution and Systematics › Fossil HistoryEvolution and Systematics › Systematics or PhylogeneticsEvolution and Systematics › Functional AdaptationsPhysiology and Cell Biology › PhysiologyPhysiology and Cell Biology › Cell BiologyMolecular Biology and Genetics › GeneticsConservation › Conservation StatusConservation › TrendsConservation › ThreatsConservation › LegislationConservation › ManagementRelevance to Humans and Ecosystems › BenefitsRelevance to Humans and Ecosystems › RisksNotesTaxonomyEducation ResourcesCitizen ScienceIdentification Resources
  • Note t
  • Low hanging fruit is mostly goneFellowsSmaller partners
  • Why it is important to streamlineAbout 32 partners have managed to make their own XML resource docs – but that probably has the lowest cost per returnBut Connectors may be even more important -- -- web services & db connectors putting content on at least ½ million pagesLDs/Scratchpads important for small partnersSpreadsheets popular, with new transfer schema and flatfile archive format, the XML bar may go down and the spreadsheet might go up
  • Introducing Encyclopedia of Life version 2

    1. 1. EOLv2
    2. 2. Key ideasEngagementLeveraging Darwin CoreCollaborations
    3. 3. v2: Scope & Engagement• All species• Global• Many audiences – enthusiasts – scientists – learners – citizen scientists
    4. 4. eol.orgAggregation Engagement• Assemble • Internationalize• Curate • Personalize • ContextualizeEOL v1 EOL v2
    5. 5. EOL aggregates and curatesScientific DatabasesBHL, GBIF, ALA, COL, ScratchpadsScientific JournalsPensoft Publishing Curate Aggregate Comment Rate, Collect Quality control, prioritization API Third party apps
    6. 6. Summarizing knowledge Not managing raw data
    7. 7. Many topicsMorphology, conservation, behavior ecology, genomics etc.
    8. 8. NCBITaxonomy is framework Not the goal ITIS and COL
    9. 9. v2 engagement: CollectionsHow would you like to get information from collections?
    10. 10. v2 engagement: Communities toshare interests or to share work
    11. 11. • Collections as checklists• Third-party app using collections to instantly set up new mobile data entry• Could copy items & annotations to reflect actual observations
    12. 12. V2 engagement: Internationalization• Spanish – INBio, CONABIO• Arabic – Bibliotheca Alexandrina• Translatewiki for interfaces in other languages
    13. 13. v2: Incentives for improvement See updates tab priority_taxa_on_eol Image credit: Peter Förster
    14. 14. SPM DwC infoitemdescription Plinian Core using Darwin Core Archive flat files as transport mechanism EOL v2
    15. 15. Common Names Taxon ReferencesAttribution Image
    16. 16. Take-home messages• EOL helps taxonomists and others reach broader audiences via engagement• Leveraging and adding to existing Darwin Core• Collaborations are key, for content, for software development, quality control, for sustainability
    17. 17. Tree contest• Largest hierarchy that reflects the state of our phylogenetic knowledge• Submit to EOL in DwC-A• Proof of concept• Navigation of EOL web content• Prize – all-expenses paid trip toiEvoBio 2012 in Ottawa, CanadaSTAY TUNED FOR DETAILS
    18. 18. AcknowledgementsFunding from: John D. and Catherine T. MacArthur Foundation Alfred P. Sloane Foundation Smithsonian Institution Marine Biological Laboratory Harvard University and other funders and donorsAll our content partners and global partners, especially: INBio -- Costa Rica Biblioteca Alexandrina -- Egypt CONABIO – Mexico GBIFVolunteer curators and individual contributors via Flickr, Wikimedia, and members of EOL
    19. 19. Controlled vocabularyNumeric values RelationsEOL v3?
    20. 20. Sample biological contentEOL Table of Contents TDWG Species Profile ModelPhysical Description › Morphology #MorphologyPhysical Description › Size #SizeEcology › Habitat #HabitatEcology › Associations #AssociationsLife History & Behavior › Life Expectancy #LifeExpectancyEvolution and Systematics › Functional Adaptations #EvolutionConservation > Conservation Status #ConservationStatusMolecular Biology and Genetics › Genetics #GeneticsMolecular Biology and Genetics › Genome #MolecularBiologyMolecular Biology and Genetics › Molecular Biology #MolecularBiologyNucleotide Sequences #MolecularBiology
    21. 21. v2 content standardsContent type Standards used• Taxa • Darwin Core• Attribution & • Dublin & Darwin licensing Core• Text objects & links • SPM (and now +)• Multimedia • Dublin (+ Audubon Core)
    22. 22. Low hanging fruit Photo credit: Stanislas PERRIN
    23. 23. How EOLv1 got content n=141 partners70605040 CSV30 web service20 PDF10 HTML DB0 XML resource doc Connector LD/eLD/Scratchpad LD/eLD/Scratchpad Spreadsheet