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Sunday, April 17 • 9:00am - 12:30pm
Research Data Searchathon FULL

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Limited Capacity full
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Questions to explore in breakouts- Google Doc

Structure - subject to suggestions and change
9:00-9:15 Introduction, goals, Barcelona recap – Ian Fore, Rafael Jimenez
How we will gather the output from the workshop

9:15-10:00am Introduction of each tool/approach
Six minute lightning talks – moderated by Lisa Mahoney
HubZero/nanoHUB/NCIPHUB – Michael Zentner
CEDAR - Mark Musen
bioCADDIE User Interface – Jeff Grethe
bioCADDIE Metadata Model – Susanna Sansone
Schema.org – Natasha Noy
BioSchemas – Rafael Jimenez
Content Management - Ian Fore 

10am-12pm 4 x 30 min quarters in groups

  • Each group looks at one or two tools/approach hands on. Focused on interactive exploration of the tools rather than a one way demos.
  • Participants move to a different group for each quarter.
  • Tool owners have at least one quarter where they are a participant rather than an "owner".

12pm-12:30pm Discussion and Reporting

How do different tools to discover research data compare when used by real users with real use cases? Driven by the need in the biomedical community to find data this hands on workshop will explore that question. We will look at the NIH funded bioCADDIE index, Elixir/Excelerate projects, other indexes of biomedical data and generic search engines. While the subject matter is driven by biomedical research exploring tools like nanoHUB show how other fields address the issues. Bring your laptop and examples ready to share. Explore other’s examples and learn something yourself. No Powerpoint - just a working session on searching. We will aim to gather the learning from the workshop to inform NIH’s Big Data to Knowledge program, Elixir’s Excelerate and other resource indexing projects.

Think of this as a hackathon without the hacking. The characteristic of a hackathon we would like to preserve is as a hands-on activity where participants work side by side on a common problem, sharing their knowledge and learning from one another. We won’t build new tools in this workshop, but we will aim to learn more from one another about how we search for data and what different tools can do... so a searchathon.  Maybe you have a better name for it - let us know that too.

Nor are we confined to tools specific to biology, science or research. How far can we get using the search engines that scientists use day to day? If those engines only takes us part of the way then what’s the gap?

The following are examples of the kinds of tools it would be useful to explore.

  • Specialized indexes or catalogs that serve a particular domain well.

  • Bodies of datasets marked up with metadata/microformats which mean that Google, Bing and other search engines are now useful tools to reach into research ot other scholarly domains?

  • Tools that allow metadata mark-up by data producers and integrate with search engines to make that data findable.

The workshop will be organized with a lightning-style introduction to a number of relevant tools. Then we’ll break into groups to share and compare approaches. We’ll wrap up with a brief recap of the main things learnt. After the meeting we’ll share a summary to identify findings useful to the EU Elixir and NIH BD2K indexing projects.

Additional details of each tool are listed  here.

avatar for Ian Fore

Ian Fore

Senior Biomedical Informatics Program Manager, National Institutes of Health
One time cardiovascular physiologist sidelined into informatics by the big data it produced. Now based at the US National Cancer Institute, one of the National Institutes of Health. Current work is in data science and data management focussed on biomedical informatics. Developing... Read More →

Jeffrey Grethe

Researcher/Scholar/Scientist, UCSD
avatar for Rafael C Jimenez

Rafael C Jimenez

Rafael C. Jimenez is Chief Technical Officer of ELIXIR (the European life-sciences Infrastructure for biological Information). He is a biologist and a computer scientist specialised in the coordination and management of Bioinformatics services. Interested in topics related to infrastructure... Read More →

Lisa Mahoney

Project Manager, Sapient
avatar for Mark Musen

Mark Musen

Professor, Stanford University
avatar for Natasha Noy

Natasha Noy

Senior Staff Scientist, Google
Natasha Noy is a senior staff scientist at Google Research where she works on making structured data accessible and useful. She leads the team building Dataset Search, a search engine for all the datasets on the Web. Prior to joining Google, she worked at Stanford Center for Biomedical... Read More →
avatar for Susanna Sansone

Susanna Sansone

Professor, Group Leader, University of Oxford
avatar for Michael Zentner

Michael Zentner

Director, HUBzero Platform, Purdue University / HUBzero
Entrepreneurship, Leadership of large cyberinfrastructure projects.

Sunday April 17, 2016 9:00am - 12:30pm PDT
Room 1S019 (25 seats) OHSU Collaborative Life Sciences Building