Recommended
More Related Content
What's hot
What's hot (20)
Similar to eScience Institute presentation on eagle-i
Similar to eScience Institute presentation on eagle-i (20)
More from mhaendel
More from mhaendel (20)
Recently uploaded
Recently uploaded (20)
eScience Institute presentation on eagle-i
- 1. The eagle-i Network: enabling research resource discovery Melissa Haendel Oregon Health & Science University Library 03.15.13 LIBRARY
- 2. Outline History of eagle-i Network Basic features & functionality Relationship to research lifecycle & community Future collaborations
- 3. Dreams of a bench scientist Better access to resources and expertise More reproducible science Credit where credit is due Visible and interoperable data Efficient science.
- 4. All of these dreams are aided by semantic technologies: Uniform resource Identifiers Ontologies (enabling common reference, differencing) Linked Data … and applications that use them
- 5. Helping researchers find invisible resources Reagents, instruments, services, model and non-model organisms, protocols, biospecimens, human studies, software and research opportunities Adding meaningful semantic relationships between resources Making this data available using ontology-driven approach to research resource annotation and discovery Reducing time-consuming and expensive duplication of resources eagle-i Network
- 8. ? x Failed experiment Polyclonal anti-TGFβ RI Santa Cruz Biotechnology A Identifying resources
- 9. eagle-i: making research resourcesmore visible B Successful experiment!
- 10. The problem Information is context dependent
- 11. Ontologies provide links, or “context” for information Nice automobile is_a Operating system is_a Fast mammal is_a named_after named_after
- 12. SWEET: an ontology-driven data collectiontool
- 13. www.eagle-i.net How are resources shared in eagle-i?
- 14. eagle-i data with a new user-friendly user interface Enables quality search of OHSU cores in Google Enables an OHSU cross-core search for instruments and services Developed by UCSF: http://ctsiatucsf.github.com/plumage/ OHSU Core Search = leveraging eagle-i
- 16. ISF net w o r k ISF can be used by other applications
- 17. eagle-i is an ontology-driven application . . . for collecting and searching research resources. VIVO is an ontology-driven application . . . for collecting and displaying information about people. CTSAconnect will produce a single Integrated Semantic Framework, a modular collection of ontologies eagle-i Resources VIVO Peopleeagle-i VIVO Semantic Clinical activities Merging VIVO and eagle-i semanticinfrastructure eagle-i
- 18. Identify potential collaborators, relevant resources, and expertise across scientific disciplines Assemble teams of scientists to address specific research questions Evaluate scientific outcomes Oregon Health & Science University Cornell University University of Florida Stony Brook University University at Buffalo Harvard University CTSAconnect | Reveal Connections. Realize Potential.
- 19. Antibody Registry and eagle-i use a shared ontology
- 20. Publishing unique identifiers can aid scientific reproducibility Antibodies are not very uniquely identifiable in 57 publications Percent 0% 20% 40% 60% 80% 100% Commercial antibody identifiable Non-commercial antibody identifiable n=207 n=8 Working with publishers to increase reporting guidelines
- 21. PreservePublishResearch CTSAconnect Reveal Connections. Realize Potential. net w o r k Scholarly scientific research cycle
- 22. We can all work together to make research resourcesmore visibleand researchmore efficient. Successful experiment! net w o r k
- 23. Resources Ontology Development Group http://bit.ly/ohsuontdevgroup CTSAconnect project ctsaconnect.org CTSAconnect ontology http://code.google.com/p/connect-isf/ VIVO integrated search vivosearch.org eagle-i federated search http://www.eagle-i.net eagle-i ontology http://code.google.com/p/eagle-i/ eagle-i software code https://open.med.harvard.edu/display/eaglei/Software OHSU Cores Search www.ohsu.edu/research/coresearch
- 24. OHSU Library Ontology Development Group Melissa Haendel – Co-Lead, Neuroscientist/Ontologist Carlo Torniai – Co-Lead, Computer Scientist/Ontologist Nicole Vasilevsky – Project Manager, Cell Biologist/Ontologist Scott Hoffmann – Engineer/Ontologist Erik Segerdell – Biologist/Ontologist Matthew Brush – Molecular biologist/Ontologist Shahim Essaid – MD/Bioinformatist/Ontologist
- 25. CTSAconnect eagle-i OHSU Melissa Haendel Carlo Torniai Nicole Vasilevsky Chris Kelleher Shahim Essaid Cornell University Dean Krafft Jon Corson-Rikert Brian Lowe University of Florida Mike Conlon Chris Barnes Nicholas Rejack OHSU Melissa Haendel Carlo Torniai Nicole Vasilevsky Scott Hoffmann Matthew Brush Jackie Wirz Stony Brook University Moises Eisenberg Erich Bremer Janos Hajagos Harvard University Daniela Bourges Sophia Cheng University at Buffalo Barry Smith Dagobert Soergel Zaloni Will Corbett Ranjit Das Ben Sharma Harvard University Lee Nadler Doug MacFadden Marc Ciriello Richard Pearse Daniela Bourges Tenille Johnson Vanderbilt University Gordon Bernard Lisa Robins Penn Garret Fitzgerald Faith Coldren Acknowledgements
Editor's Notes
- This is just a draft- copied from RedCap slides
- Text -> more complex on images Look for word “jaguar”- no meaning in the word- can be animal, car, operating system.Information is syntaxic not semantic, unable to know what we are referring to exactly
- If we want to keep this slide, need to update the screenshot SWEET is an ontology-driven data collection tool
- How are resources shared in eagle-i?
- Include publication in landscape pictureFor commercial antibodies- identifiable/non-commercial identifiableNumber of antibodies and number of papersBring back to eagle-i
- Move to end