Virtual Webinar Series
Past Webinars
Advanced Methods of Data Science in Biomedical Research:
Publishing in Specialized and Generalist Scientific Data Repositories
February 8, 2023
About this webinar series
Scientific data management is undergoing revolutionary changes and fresh opportunities are emerging. The National Institutes of Health released new scientific data management requirements, scientific data, repositories, and other opportunities are changing publication practices, and innovative methods are emerging for data analysis transforming biomedical research. While this is happening, greater volumes of well curated and cleaned datasets are becoming available for use by researchers.
The purpose of this three-part, action-oriented data science webinar series is providing an update on the latest developments and offer practical solutions. The intended audience includes biomedical researchers, health sciences librarians, health informaticians, and other health professionals.
Publishing in Specialized and Generalist Scientific Data Repositories
Electronic data repositories represent some of the newest channels of publishing scientific research results, often in conjunction with manuscript submission. Attendees should get an overview of the selection of the most significant and trusted research data repositories, and also specific recommendations regarding when, and where to publish research data and evidence using repositories.
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SPEAKERS
Moderator:
Chris Shaffer, MS, University Librarian and Assistant Vice Chancellor for Academic Information Management, University of California, San Francisco
Chris Shaffer joined UCSF as University Librarian, Assistant Vice Chancellor for Academic Information Management, and Adjunct Professor, Department of Medicine, in August 2017. Previously, he was University Librarian and Associate Professor at Oregon Health & Science University (OHSU) for nine years. He has helped plan interprofessional education initiatives and worked with research offices and Clinical and Translational Science Award centers to develop new library services for researchers. At OHSU, he worked with Dr. Melissa Haendel to found the Ontology Development Group. A leader in the Orbis Cascade Alliance, Chris was a champion for the library consortium’s migration to a Shared Integrated Library System. Chris is an active member of the Medical Library Association, where he recently finished a term as Treasurer on the Board of Directors, and is a Distinguished Member of the Academy of Health Information Professionals.
Plenary:
Publishing in Specialized and Generalist Scientific Data Repositories: Stephen Sherry, PhD, Acting Director, National Center for Biotechnology Information, National Library of Medicine
Dr. Sherry oversees a large suite of online resources for biological information and data, including the GenBank® nucleic acid sequence database and the PubMed database of citations and abstracts for published life science journals. He is also responsible for developing and operating all NCBI production services, with program areas spanning literature, sequences, chemistry, clinical research, and medical genetics.
Panel:
Jerry Sheehan, Deputy Director for Policy and External Affairs at the National Library of Medicine
Jerry Sheehan provides executive guidance and counsel to the NLM Director on all matters, with particular attention to NLM’s many policy and external engagements. He leads efforts across NLM, NIH, and the federal government to advance open science and enhance public access to the results of NIH-funded research, including scholarly publications, preprints, and data. Mr. Sheehan has twice served on detail to the White House Office of Science and Technology Policy, leading administration efforts related to open science, scientific integrity, scientific collections, and medical imaging. Before joining NLM, Mr. Sheehan directed work on international science and innovation policy at the Organization for Economic Cooperation and Development and on computing research and internet policy at the National Academy of Sciences. Mr. Sheehan serves as co-chair of the National Science and Technology Council Subcommittee on Open Science; vice-chair of the OECD Working Party on Innovation and Technology Policy, and U.S. delegate to the G7 Open Science Working Group. He holds BS and MS degrees in Electrical Engineering and Technology & Policy, respectively, from the Massachusetts Institute of Technology.
NIH ODSS GREI Initiative: Ishwar Chandramouliswaran, National Institutes of Health
Ishwar Chandramouliswaran is a lead program director in the Office of Data Science Strategy (ODSS) at the National Institutes of Health’s (NIH). He provides leadership, strategic guidance, and coordination of trans-NIH FAIR data science programs driven by researcher needs and emerging technologies. They include adoption of FAIR data principles, initiatives to establish a modernized biomedical data and repository ecosystem, as well as establish community partnerships to enhance education, adoption, and implementation of FAIR practices.
Sequence Data Repositories: Kim Pruitt, PhD, Chief, Information Engineering Branch, National Center for Biotechnology Information
National Library of Medicine
Kim Pruitt is the Chief of NCBI’s Information Engineering Branch, in the National Library of Medicine. She’s been at NCBI for nearly 25 years now, where she first developed the RefSeq product, and now manages NCBI’s public literature and molecular biology data services including ClinicalTrials.gov, PubMed, GenBank, SRA, and more. She earned her PhD at Cornell in Genetics and Development then did her first postdoc at the Boyce Thompson Institute studying the genetics of tryptophan biosynthesis in a plant model organism. She subsequently founded a small (but short-lived) start-up company that specialized in laboratory data management systems, and did a second post doc at NCBI focused on developing one of the first microarray’s to identify human gene expression, before joining as staff.
Generalized Repository Dataverse: Sonia Barbosa, BA, BSN, Manager of Data Curation for the Harvard Dataverse, and Manager of the Murray Research Archive, Harvard University
Sonia Barbosa is the Manager of Data Curation for the Harvard Dataverse, and Manager of the Murray Research Archive. Her responsibilities include initiating outreach and acquisitions of data for Harvard Dataverse, and promoting the use and benefits of the Dataverse tool and the Harvard Repository. Sonia leads training on using Dataverse, consults with users on organizing, cleaning, and preparing data for sharing and preservation, and provides curation support and guidance for users of the tool.
Sonia also manages the data housed at the Murray Archive, a human subjects social science data archive housing longitudinal data on the lives of women. She is responsible for curation of the collection, preservation of data related to the archive, and data processing and dissemination.
Thank you to our sponsor
Webinar 1:
New NIH Requirements for Scientific Data Management and Sharing
Wednesday January 18, 2023 @ 12:00 PM EST
This one hour webinar will provide an overview of the new data management requirements of NIH plus critical issues in terms of compliance. Attendees should get not only a comprehensive introduction but also actionable recommendations for ethical data management and a model data management plan.
Welcome: Andrew, Balas, MD, PhD, Vice President, Friends of the NLM Board of Directors
Moderator:
Elaine Martin, DA, Director, The Francis A. Countway Library of Medicine, Harvard Medical School
Keynote
Lyric Jorgenson, PhD, Acting Associate Director for Science Policy & Acting Director of the Office of Science Policy at The National Institutes of Health
Dr. Jorgenson is the Acting Associate Director for Science Policy and the Acting Director of the Office of Science Policy at the NIH. In this position, she provides senior leadership in the development and oversight of cross-cutting biomedical research policies and programs considered to be of high-priority to NIH and the United States Government. Prior to this role, she served in numerous roles across the agency, including Deputy Director of the Office of Science Policy, and has led the development of numerous high impact science and policy initiatives such as the Brain Research through Advancing Innovative Neurotechnologies (BRAIN) Initiative and the National Center for Advancing Translational Sciences (NCATS). Dr. Jorgenson also served as the Deputy Executive Director of the White House Cancer Moonshot Task Force in the Office of the Vice President in the Obama administration, where she directed and coordinated cancer-related activities across the Federal government and worked to leverage investments across sectors to dramatically accelerate progress in cancer prevention.
Dr. Jorgenson earned a doctorate degree from the Graduate Program for Neuroscience at the University of Minnesota-Twin Cities where she conducted research in neurodevelopment with a focus on learning and memory systems. She earned a Bachelor’s degree in Psychology from Denison University.
Live Keynote Q&A session
Panel:
Timing of Major Data Management Actions – Taunton Paine, MA, Director, Scientific Data Sharing Policy Division, Office of Science Policy, National Institutes of Health
Checklist of Data Management Plans – Peter Elkin, MD, MACP, FACMI, FNYAM, FAMIA, FIAHSI, University of Buffalo Distinguished Professor and Chair, Department of Biomedical Informatics.
Dr. Elkin has published over 200 peer reviewed publications and book chapters. He received his Bachelors of Science from Union College and his M.D. from New York Medical College. He did his NIH/NLM sponsored fellowship in Medical Informatics at Harvard Medical School and the Massachusetts General Hospital. Dr. Elkin has been working in Biomedical Informatics since 1981 and has been actively researching health big data science since 1987. Dr. Elkin is a Master of the American College of Physicians and a Fellow of the American College of Medical Informatics and a Fellow of the New York Academy of Medicine. He was awarded the Mayo Department of Medicine’s Laureate Award for 2005. Dr. Elkin is the index recipient of the Homer R. Warner award for outstanding contribution to the field of Medical Informatics. Dr. Elkin is an internationally renowned expert in knowledge representation, ontology, natural language processing and health IT standards. Dr. Elkin in 2018 received the Team Science Award from the National Center for Advancement of Translational Sciences and was elected an inaugural fellow of the American Medical Informatics Association for Clinical Informatics excellence and has been elected to the International Academy of Health Sciences Informatics. He serves on the NCATS Informatics Quality Metrics Committee. He publishes the Springer series Textbook on Ontology, Terminology and Terminological Systems.
Ethics of Data Management – Barbara Redman, PhD, MBE, Associate, Division of Medical Ethics, New York University Langone Medical Center & Senior Fellow, Ge2P2Global
Barbara K. Redman, PhD, MBE, RN, FAAN is Associate, Division of Medical Ethics, New York University School of Medicine and Courtesy Appointed Professor, NYU School of Nursing. She currently also serves as Senior Fellow of Ge2P2Global, a global consulting firm.
Dr. Redman has held academic appointments/deanships at: University of Washington, University of Minnesota, University of Colorado, Johns Hopkins University, University of Connecticut, and Wayne State University. She has had fellowships at: VA Central Office (health policy and management of large health care systems), and in bioethics at Georgetown University’s Kennedy Institute of Ethics, Fellow in Medical Ethics at Harvard Medical School, and Senior Fellow, University of Pennsylvania Center for Bioethics. Dr. Redman holds honorary doctorates from Georgetown University and from the University of Colorado.
Dr. Redman’s focus is on research integrity.
Library Support – Philip Walker, MLIS, MS, Director, Annette and Irwin Eskind Family Biomedical Library and Learning Center, Vanderbilt University
Mr. Walker previously worked at Tulane University’s Rudolph Matas Library of the Health Sciences. His research interests include the information needs and information seeking behavior of the health sciences community, biomedical and nursing informatics, knowledge translation, evidence-based practice, and information ecology. Philip earned a master’s in library and information science from Louisiana State University and a master’s in health informatics from the University of Missouri. He is originally from New Orleans, Louisiana.
Live Panel Q&A session
Webinar 2:
Webinar 3:
Sandra Franklin, MLS, AHIP, FMLA, Director, Woodruff Health Sciences Library, Emory University
Andrew Balas, MD, PhD, 
Nandini Selvam, PhD, MPH 
Peace Ossom-Williamson, MLS, MS, AHIP is Associate Director of the NNLM National Center for Data Services and Associate Curator at NYU Grossman School of Medicine. Ossom-Williamson’s background includes numerous roles leading research data services, scholarly communications, and health sciences information literacy efforts. Her research areas are in scholarly research behaviors, open data, open science, and DEIA. In recognition of her research, Peace received the 2021 Texas Woman’s University Hallmark Alumni Award as well as the Medical Library Association’s 2020 Ida and George Eliot Prize which recognizes the most effective article in furthering medical librarianship. She is also an active educator, teaching at San Jose State University’s graduate iSchool program and The University of Texas at Arlington’s undergraduate public health program.
Wade Davis, PhD, Vice President of Computational Science, Moderna. He holds a PhD in Statistics and completed an NIH Fellowship in Biomedical Informatics. He was previously VP of Analytics at Karius, a late-stage start-up using artificial intelligence for unbiased diagnosis of pathogens using microbial cell-free DNA. Prior to that, Dr. Davis spent seven years at AbbVie, where he was Global Head of Bioinformatics and Computational Biology. He and his teams use computational methods to solve complex problems in R&D. He has authored many publications focused on target identification, predicting target-indication success, mechanism of action, and precision medicine.In Focus
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