Opening Science & Scholarship
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1 Opening Science & Scholarship Michael F. Huerta, Ph.D. Coordinator of Data Science & Open Science Initiatives Associate Director for Program Development National Library of Medicine, NIH National Academies September 18, 2017
2 The National Library of Medicine
3 The National Library of Medicine NIH Institute Lead, conduct & support research in: Information science Informatics Data science
4 The National Library of Medicine NIH Institute Lead, conduct & support research in: Information science Informatics Data science Biomedical Library The world s largest Embrace openness science and scholarship Steward of literature and more Index > 5600 journals in MEDLINE Major data & info resources Sends > 100 terabytes of data to > 4 million users Receives > 10 terabytes of data from > 3,000 users
5 What NLM Does Biomedical Science
6 Biomedical Science
7 Literature Biomedical Science
8 Data Literature Biomedical Science
9 Literature Data Software Biomedical Science Models Workflows
10 Collections of Digital Research Objects Models Data Literature Biomedical Science Software Workflows
11 Collections of Digital Research Objects Biomedical Science Curate Information Science
12 Collections of Digital Research Objects Biomedical Science Selection Preservation Information Science Acquisition Classification Metadata
13 Collections of Digital Research Objects Biomedical Science Compute in context Informatics Information Science
14 Collections of Digital Research Objects Biomedical Science Algorithms Ontologies Informatics Computation Software tools Information Science
15 Collections of Digital Research Objects Biomedical Science Data Science Informatics Extract insight from data Information Science
16 Collections of Digital Research Objects Biomedical Science Visualization Statistics Data Science Informatics Probabilistics Artificial intelligence Information Science
17 Biomedical Science Data Science Open Science Informatics Information Science
18 Digital Research Objects
19 F Findable Digital Research Objects
20 FA Findable Accessible Digital Research Objects
21 FAI Findable Accessible Digital Research Objects Interoperable
22 FAIR Findable Accessible Digital Research Objects Re-usable Interoperable
23 Attributable Findable Accessible Digital Research Objects Re-usable Interoperable Sustainable
24 BioProject
25 BioProject
26 Unified Medical Language System BioProject
27 Data Science at NIH
28 Data Science at NIH Advisory Committee to the NIH Director Recommended:
29 Data Science at NIH Advisory Committee to the NIH Director Recommended: Data Science - NLM should be the intellectual and programmatic epicenter for data science at NIH and stimulate its advancement throughout biomedical research and application.
30 Data Science at NIH Advisory Committee to the NIH Director Recommended: Data Science - NLM should be the intellectual and programmatic epicenter for data science at NIH and stimulate its advancement throughout biomedical research and application. Open Science - NLM should lead efforts to support and catalyze open science, data sharing, and research reproducibility, striving to promote the concept that biomedical information and its transparent analysis are public goods.
31 Data Science at NIH Advisory Committee to the NIH Director Recommended: Data Science - NLM should be the intellectual and programmatic epicenter for data science at NIH and stimulate its advancement throughout biomedical research and application. Open Science - NLM should lead efforts to support and catalyze open science, data sharing, and research reproducibility, striving to promote the concept that biomedical information and its transparent analysis are public goods. Recommendations Accepted
32 Data Science
33 Sharing Data Open Science
34 Sharing Data Open Science Data-centric & open paradigm
35 Sharing DROs* Open Science *Digital Research Objects - Data - Software - Publications - Workflows, etc.
36 FAIR Sharing DROs Open Science FAIR
37 FAIR Sharing DROs Open Science FAIR Data-centric & open paradigms have proven successful
38 NIH Support for Data-Centric & Open Science Large Scale Data
39
40 The Human Connectome Project TOPMed
41 The Human Connectome Project TOPMed
42 Data Centric & Open Science Requires soft & hard infrastructure: Clear & heeded policies of funders, publishers, etc. Widely-used data-related standards (incl metadata) Data repositories, platforms & tools Appropriate incentive structure
43 Data Centric & Open Science Requires soft & hard infrastructure: Clear & heeded policies of funders, publishers, etc. Widely-used data-related standards (incl metadata) Data repositories, platforms & tools Appropriate incentive structure When implemented with FAIR principles Forms basis of digital ecosystem transformational Accelerating pace of discovery Changing the nature of discovery
44 Most domains of biomedical research are neither data-centric nor open
45 For these domains, the major public products of research are scientific papers that describe the authors conclusions about the data...
46 but the underlying data are never seen.
47 but the underlying data are never seen. Much less shared
48 This is about to change
49 Societal expectations
50 Societal expectations Policy directives
51 Societal expectations Policy directives Technical capabilities
52 Societal expectations Policy directives Technical capabilities Scientific opportunities
53 Societal expectations Policy directives More Sharing & More Open Across All Domains Technical capabilities Scientific opportunities
54 Build on NIH-Wide Opportunities
55 Findable PubMed Build on NIH-Wide Opportunities Finding literature Finding data via PubMed Central data deposit, Link Out, etc.
56 Findable PubMed Build on NIH-Wide Opportunities Finding literature Finding data via PubMed Central data deposit (10/17) Accessible - Holdren Memo to increase access NIH plan for publications PubMed Central NIH plan for data Peer reviewed DMP for all research Many repositories open for data deposit and withdrawal
57 Findable PubMed Build on NIH-Wide Opportunities Finding literature Finding data via PubMed Central data deposit, Link Out, etc. Accessible - Holdren Memo to increase access NIH plan for publications PubMed Central NIH plan for data Peer reviewed DMP for all research Many repositories open for data deposit and withdrawal Interoperable - Standards NLM UMLS, SNOMED-CT, LOINC, RxNorm, etc. Repository & Initiative-related standards across NIH NIH Clinical Common Data Element Task Force
58 Findable PubMed Build on NIH-Wide Opportunities Finding literature Finding data via PubMed Central data deposit, Link Out, etc. Accessible - Holdren Memo to increase access NIH plan for publications PubMed Central NIH plan for data Peer reviewed DMP for all research Many repositories open for data deposit and withdrawal Interoperable - Standards NLM UMLS, SNOMED-CT, LOINC, RxNorm, etc. Repository & Initiative-related standards across NIH NIH Clinical Common Data Element Task Force Re-usable Linking systems of DROs PubMed publication & data citations NIH data repositories - data NIH administrative systems (info about grants, DMPs, PIs, etc.) NIH Data Commons Cloud Shared space for compliant DROs, tools, compute, etc.
59 Pivot to the Future
60 Pivot to the Future Strategic Engagement Across & Beyond NIH
61 Pivot to the Future Strategic Engagement Across & Beyond NIH Sustainability solutions urgent to address
62 Sustainability
63 Sustainability
64 Sustainability Strategic approach may bend the cost-curve
65 Pivot to the Future Strategic Engagement Across & Beyond NIH Sustainability solutions
66 Pivot to the Future Strategic Engagement Across & Beyond NIH Sustainability solutions Enterprise-wide approaches (balance w IC needs) Solve common problems once Lessons learned & best practices Converge on common: Data-related standards Architectures Acquisitions Operational approaches
67 Pivot to the Future Strategic Engagement Across & Beyond NIH Sustainability solutions Enterprise-wide approaches (balance w IC needs) Solve common problems once Lessons learned & best practices Converge on common: Data-related standards Architectures Acquisitions Operational approaches Evidence-based value assessment for investment in policy changes, infrastructure, data acquisition, preservation, etc. Cost vs benefit analyses Develop and use evidence base & models
68 Pivot to the Future Strategic Engagement Across & Beyond NIH
69 Pivot to the Future Strategic Engagement Across & Beyond NIH Grow a talented workforce intra- & extramural Data science experts Train across bio & data science NIH staff research, technical, program, review & policy
70 Pivot to the Future Strategic Engagement Across & Beyond NIH Grow a talented workforce intra- & extramural Data science experts Train across bio & data science NIH staff research, technical, program, review & policy Promote open science & citizen science Evidence-based changes in policies & practices Tools to empower research participants, patients, & citizens
71 Pivot to the Future Strategic Engagement Across & Beyond NIH Grow a talented workforce intra- & extramural Data science experts Train across bio & data science NIH staff research, technical, program, review & policy Promote open science & citizen science Evidence-based changes in policies & practices Tools to empower research participants, patients, & citizens Continue research & innovation in data science Artificial intelligence, analytics, statistics, probabilistics, etc. At-scale curation (metadata, provenance, etc.)
72 Pivot to the Future Strategic Engagement Across & Beyond NIH Grow a talented workforce intra- & extramural Data science experts Train across bio & data science NIH staff research, technical, program, review & policy Promote open science & citizen science Evidence-based changes in policies & practices Tools to empower research participants, patients, & citizens Continue research & innovation in data science Artificial intelligence, statistics, probabilistics, analytics, etc. At-scale curation (metadata, provenance, etc.) Strategic incentive structure for data-centric & open paradigm Will require incentives to change behavior of people & orgs Strategically align incentives across ecosystem to maximize impact Likely best done domain-by-domain
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