@cydparr @eol

Cynthia ParrPhenotype RCN NESCent 25 February 2013

EOL aggregates and curates across topics, across the tree of life

Scientific Databases, includingBHL, GBIF, ALA, INBio, COL, Scratchpads, LifeDesks Scientific Journals Curate

CommentRate, Collect

eol.orgAggregate

Quality control API

Third party apps

EOL summarizes knowledge

Erosaria caputserpentisSerpent's Head Cowrie

Depth range based on 51 specimens in 2 taxa.Water temperature and chemistry ranges based on 40 samples.

Environmental ranges Depth range (m): -5 - 67 Temperature range (°C): 23.011 - 28.496 Nitrate (umol/L): 0.048 - 0.923 Salinity (PPS): 33.821 - 35.837 Oxygen (ml/l): 4.349 - 4.825 Phosphate (umol/l): 0.088 - 0.228 Silicate (umol/l): 0.983 - 4.026

From Moorea Biocode

From GBIFFrom OBIS

Statistics2 years ago• 2.8 million pages – one (or

more) per taxon

• 2 million data objects

• 500 thousand pages with objects

• 100+ partner databases

• 700 curators/1000s contributors/~46,000 members

Today• 3.3 million pages – one (or

more) per taxon

• 5 million CC-licensed data objects

• Over 1 million pages with objects

• 200+ partner databases

• 1200 curators/1000s contributors/~64,000 members

We have an infrastructure . . .• Aggregation mechanisms• Names resolution• Curation mechanisms• Public and machine interfaces• User-created collections

What are the next use cases to tackle?How could ontologies & annotations help?

See structured info on EOL pages

Discover and identify“find taxa with these characteristics”

Browse the whole page semantically, link to related resources (LOD: linked open data)

Google Summer of Code with Phenoscape (Alex Ginsca)Using DBPedia Spotlight to extract associations among taxa and add to Linked Open Data cloud (Devries and Thessen)Linking names, literature, phylogeny (Page)Resolving archeological data on animal domestication in the near east (Alexandria Archive Institute)

Promote NLP text mining and crowdsourcing

– Altitude Specificity of Flower Coloration (Wright)– Species Interaction Datasets—Integration,

Visualization, and Analysis (Poelen and Mungall)– Crowd-sourced data to examine morphological

impacts of extinction risk in ray-finned fishes (Chang)

– Macroecological patterns in butterfly-hostplant associations (Ferrer-Parris)

– Discovering habitat terms in EOL contents (Pafilis)

Easy access to analyzable data

“Are blue organisms more common in high altitudes?” “How can I predict vulnerability to climate change based on life history characteristics?” “What organisms should I collect to fill in gaps in genome quality data?”

• Look for data, download for all taxa• Create a collection of taxa, download all data• Use Reol: an R interface to EOL (Banbury, Omeara)http://barbbanbury.info/barbbanbury/Reol.html• Find more specialized data repositories

Dynamic online knowledge

• Support summaries with networks of evidence– E.g. Bergmann’s rule: animals living in higher

latitudes have larger body size

• As evidence grows or changes, change the knowledge summary

• Flag evidence that is in conflict with the summary

Erosaria caputserpentisSerpent's Head Cowrie

Salinity envelope (n=40)

From OBIS

Summarize data across providersFlag outlier data

The big picture

In progress: Marine computable dataDraft phylogenetic tree from Open Tree of Life project

TraitBank: access to computable descriptive information across the tree of life

Our fundersJohn D. and Catherine T. MacArthur Foundation

Alfred P. Sloane Foundation

Smithsonian Institution

Marine Biological Laboratory

Harvard University

David Rubenstein

and other funders and donors

All our content providers and global partners

Volunteer curators and individual contributors via Flickr, Wikimedia, and members of EOL

Thanks to