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9. CZI, open science, and meta


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9. CZI, open science, and meta

  1. 1. Alex D Wade (@alexwade) 19 September 2019 CZI Science, Open Science, & Meta
  2. 2. Presentation Name Date CZI’s mission Supporting science and technology that will make it possible to cure, prevent, or manage all diseases by the end of the century Accelerating biomedical science by developing new tools and technologies and supporting open, collaborative models of research 10 years81 years
  3. 3. we collaborate
  4. 4. ● ● ● ●
  5. 5. preprints protocols
  6. 6. next deadline: december 2019! essential-open-source-software-for-science/ program officer: dario taraborelli
  7. 7. Projects request between $50K and $250K for one year Not limited to writing code Docs, management, and community engagement — the “invisible work” — can all be supported! graphic by @deniseyu21 from a talk by karthik ram (@_inundata)
  8. 8. Meta
  9. 9. PubMed (Papers) bioRxiv (preprints) + full text (Publishers) + full text (crawled) Author Disambiguation Entity Recognition Affiliation Disambiguation Ringgold (Institutions) UMLS Ontologies ORCID (Authors) Paper Disambiguation Journal Mapping Citation Mapping PubMed venues Crossref Eigenfactor - Calculation Recommendations - Paper-to-Paper - Cross-Entity Recs Meta Knowledge Graph Inputs Knowledge Graph Construction Calculations
  10. 10. Predicting Impact ● Eigenfactor (EF) originally developed to assess journal importance. ● Extended to article-level (ALEF) ● Meta calculates an EF value for every node in the graph Bergstrom (2007); West el al (2010); Wesley-Smith, West, Bergstrom (2016)
  11. 11. Our approach: Predict the impact for new papers ● Problem: recent papers have zero/few citation edges so EF=0 but our users engage almost exclusively with these new (uncited) papers ● Solution: infer an Eigenfactor value for recent papers ○ ML model trained on prior publications citations at 3 years ○ Validated on withheld dataset ● Predicted Eigenfactor (EFP) calculated on all new papers ○ EFP values used to rank/sort papers in feeds ○ EFP replaced with proper EF over time as citations begin to accrue
  12. 12. Meta: next steps ● Meta pubic launch: soon! ● We would love feedback & suggestions! ● Please come curate & share your own feeds! ● How can we partner with the community?
  13. 13. Thanks! | Questions? @alexwade