Public access to research results at USDA
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An update on public access activities at the National Agricultural Library and next steps, presented 11 January 2017 at the Earth Science Information Partners (ESIP) meeting in Bethesda, Maryland.
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Public access to research results at USDA
- 1. Cynthia Parr @cydparr US Department of Agriculture National Agricultural Library 11 January 2017 Public access to research results at USDA Credit: Phenocam Swan Lake Research Farm, MN
- 2. The Story โข committed to public access โข PubAg is well along โข Ag Data Commons in the process of making USDA-funded data accessible We are
- 3. The Story part 2 public access isnโt good enoughBut Therefore we are 1. enhancing our platform 2. establishing sound curation policies and processes 3. promoting machine-readability and data stories 4. seeking a sustainable business model
- 4. Federal directives: Public access to open, machine-readable data
- 5. PubAg https://pubag.nal.usda.gov โข Launched 2014 โข Almost 50K full-text peer-reviewed articles โข More than 1 million citations for other papers โข Will collaborate with US Forest Service Treesearch โข Will expand beyond Agricultural Research Service full text โข Will cooperate with the CHORUS publisher consortium โข Will soon launch a redesign
- 7. Transform agriculture to deliver a 20% increase in quality production with 20% lower environmental impact by 2025 -- USDA Agricultural Research Service Public access is not enough
- 8. Goals for USDA digital scientific data Who What Researchers and funders Compliance with public access Agencies Compliance with open data Research (data submitters) Safe, citable place for data Research (data users) Find and use awesome data
- 9. Ag Data Commons https://data.nal.usda.gov
- 10. DKAN http://nucivic.com/dkan/ PRO โข Open source community โข Drupal modules for basic CMS functions โข Can feed Data.gov โข Basic metadata already supported CON โข Not designed for scientific data or scientists โข No links to literature โข No Digital Object Identifiers โข Doesnโt handle dataset relationships โข Metadata inadequate for compliance checking & re-use
- 11. Use all this for some data intensive research Ag Data Commons Pilot FY 2016 โข Self-submission accounts (almost 100 now) โข More than 240 datasets (104 harvested) โข Distributed curation โข Links to PubAg, tagged with NAL thesaurus terms โข DataCite Digital Object Identifiers, ORCIDs, FundRef โข Methods metadata, data dictionaries for re-use โข Designed to feed Data.gov
- 12. 2. Sound curation policies and processes โข Who can submit? โข What do we accept? โข When do we assign DOIs? โข What embargo periods are okay? โข How much review of metadata and data do we do? โข Who reviews metadata and data? โข How should data be organized? โข When do we offer a group a โcollectionโ? โข Must we host all the data? โข What can we automate? โข How do we make things more machine-readable? โข When should datasets be versioned? โข How do we handle preservation? โข How much and what kind of data storage do we need? โข How do we avoid licensing and โownershipโ confusion?
- 13. Research products Include in the Ag Data Commons (or provide links) โข Raw data files and/or Processed data files โข Data dictionary or Readme Do not submit with the data โข Manuscript โข Figures/tables from manuscript
- 14. Research products Include as resources (resource can be URL pointer) โข Web database โข Software โข Source code/Scripts/Workflows โข User manuals Do not submit with the data โข Presentations associated with the study โข News articles or press releases โข Related or cited data
- 15. JSON, RDF Data dictionary CSV, API, DB, code 3. machine-readability
- 16. 16 It is still early Effort is needed to create usable, scalable systems & linkable data
- 17. 3. Data stories From data.gov
- 19. To sum up committed to public accessUSDA is public access isnโt good enoughBut Therefore
- 20. Acknowledgements Cynthia.Parr@ars.usda.gov Susan McCarthy, Ursula Pieper, Erin Antognoli, Jon Sears, Qing Qu, Jeff Campbell, Jocelyn McNamara, Melissa Lohrey, Don Gourley, GovDelivery, Angry Cactus team The PubAg team, especially Melanie Gardner UMD: Kerry Huller, Adam Kriesberg, Meghna Sarin, Candice Ho Other students: Jaylen Nathwani
Editor's Notes
- In the Moving Beyond Mandates: Progress Towards Public Access and What the Future Holds session , presentations should focus onย providing an overview of progress we've made in our respective organizations in the area of public/open access to data/information and what we see in terms of next steps and/or a vision for the future of open/public data.ย https://phenocam.sr.unh.edu/webcam/sites/arsmnswanlake1/
- Is anybody familiar with this book? โHouston we have a narrativeโ by Randy Olson.
- ARS grand challenge How does data help you do this? It will help to provide people access to publications and data BUT It doesnโt speed up the process of helping scientists discover raw data that could be re-used in large scale analysis, or metaanalyses, or models, it doesnโt help assess data quality or fitness for use it doesnโt speed up integration with environmental data
- Help researchers and funders demonstrate compliance with public access directives Ensure that federal scientific data is in data.gov in compliance with open data directives Provide researchers with a safe, citable place for their data Help researchers find and use awesome data for future research
- How are we making USDA-funded data open, discoverable, safe to serve the ARS researchers โ place to park there data safely, or point to it where it lives in some other trusted repository Covers things like environmental measurements from the Long Term Agroecosystem Research initiative, genomics of livestock pests, and datasets related to modeling soil erosion, etc.
- Drupal Knowledge Archive Network
- To date Plan to become a trusted repository and feed data to Data.gov, the US governmentโs primary inventory of open government data
- We have a human readable page with some text descriptions, attached files, structured metadata To
- Systems are not yet mature, populated, linked, or sustainable. They need to be all of these things in order to support the revolutionary advances in food security science research that are needed Planning to scale ADC up to hold huge numbers of well documented machine-readable datasets โ but so far thatโs a lot of human effort and we don't yet have the automated process we need. For example, there are dozens if not hundreds of publicly available PDFs that have the results of performance trials of different varieties of corn and soybeans โ but almost all of that old data is not machine readable. It may or may not be linked yet to Vouchers in the National Plant Germpasm repository We are increasing our use of identifiers both in ADC and USFSC so that people could do this sort of automated work. We also need to work to start with the itemization of the DTMS ontology terms in the data.gov datasets, and get those captured on the Ag Data Commons DTMS is a research effort tied to a synthesis cetner that may not have a lot of longevity โ want to capture the results of their semantic work But furthermore, we need to make sure that those ontology terms link to the existing agricultural thesauri and ontologies so that we can better link the data
- Going beyond the basics