John Borghi, PhD

Education

Stony Brook University

PhD: Integrative Neuroscience (December 2010 – December 2013)

MA: Psychology (September 2008 – December 2010)

Clark University

BA: Psychology (September 2004 – May 2008)

Work Experience

Lane Medical Library, Stanford University

Manager, Research and Instruction (June 2019 - Present)

• Leads the Lane Library’s Research and Instruction team. This team, which currently includes two other full-time librarians, a part-time librarian, and a part-time graduate student, is responsible for much of the library’s research services, education, and outreach related activities.
• Actively manages the library’s liaison and instruction programs, including coordinating the development (or refresh) of new services, programs, and classes to best meet the needs of the Stanford Medicine community as well as efforts to systematize and document team processes, procedures, and institutional knowledge.
• Actively contributes to efforts within Lane Library, Stanford University, and the broader academic community related to open science, data sharing, and research reproducibility. This includes leading an Open Science discussion group within Lane Library, taking leadership positions in related university centers and initiatives, and collaborating with other institutional stakeholders including the Office of Research.

Data Services and Visualization Librarian (May 2018 – June 2019)

• Collaborated with units throughout Lane Library and Stanford Medicine to develop a data-driven data services program that complements the mission of the Research and Instruction team and connects university stakeholders to data-related tools, resources, and expertise.
• Actively engaged with researchers and clinicians as part of Lane’s liaison program. Responsibilities include, but are not limited to, providing reference support as part of the literature review service and education and outreach-related support through workshops and one-on-one consultations.
• Participated in ongoing initiatives to systematize library services. Responsibilities include, but are not limited to, leading an effort to quantitatively evaluate outstanding data-related needs within Stanford Medicine, designing standardized assessment materials for library classes, and documenting team policies and procedures.

UC Curation Center, California Digital Library

Postdoctoral Fellow in Data Curation (June 2016 – May 2018)

• Collaborated with stakeholders throughout the University of California system to promote the management, curation, and preservation of scholarly outputs.
• Led the development of tools for facilitating communication between researchers and research service providers- including a toolkit enabling researchers to assess and advance their data-related practices, a customizable survey designed to characterize scholarly communications and data-related practices in neuroscience, psychology, and other research disciplines, and a series of resources addressing how researchers use, share, and value software and computer code.
• Engaged with the local, national, and international open science, digital curation, and research data management communities through participating in academic meetings, authoring blog posts, contributing to digital curation-related discussion groups, and writing grant proposals to fund efforts related to data management, sensitive data, and researcher education and training.

Markus Library, Rockefeller University

Science Informationist (July 2013 – May 2016)

• Provided proactive research support services at a world-renowned center for biomedical research and graduate education.
• Facilitated the development of laboratory data collection, management, and storage protocols, designed and administered individualized reference and research support services to students, faculty, and university administrators, and led seminars on topics related to research data management, reference management, and complying with open access and data sharing mandates.
• Managed library communications and acted as a liaison between the library and campus research communities. Collaborated with RU’s communication, IT, and research support teams to draft recommendations regarding university-wide research data management, research data storage, and open access policies.

Cognitive Neuroscience Lab, Stony Brook University

Graduate Researcher and Research Coordinator (September 2008 – December 2013)

• Oversaw collaborative research projects investigating information processing in the human brain. Coordinated the activity of collaborators from a variety of disciplines including neuroscience, clinical and cognitive psychology, physics, and computer science. Supervised a team of research support staff including research assistants, technical personnel, and subject pool managers.
• Communicated project goals, results, and implications to a wide variety of audiences including other research scientists through seminar presentations, conference posters, and journal articles, IRB members and lab personnel through internal presentations and reports, and non-expert audiences through public symposia and abstracts.
• Trained undergraduate research assistants and students on best practices in experimental design, statistical analyses, brain imaging techniques, and research data management.

Certifications and Affiliations

• Executive Board, Center for Open and Reproducible Science at Stanford (CORES)
• Affiliate, Stanford Program on Research Rigor and Reproducibility (SPORR)
• Fellowship Advisory Committee Member, Council of Library and Information Resources (CLIR)
• Catalyst, Berkeley Institute for Transparency in the Social Sciences (BITSS)
• Graduate, Stanford Management Academy
• Certified Instructor, Software Carpentry
• Member, Research Data Alliance
• Member, Force11

Awards and Fellowships

• AAHSL/PNR-NNLM Research Data Professional Development Award (2019)
• Data Share Fellowship, Research Data Alliance (RDA) (2016 - 2018)

Publications in Progress

Akers, K. & Borghi, J.A. Research data management and sharing. Forthcoming in Cooper H. (Ed) The APA Handbook of Research Methods in Psychology (2nd Edition). APA Press.

Publications

Borghi, J. A. & Van Gulick, A. E. (2021) Data management and sharing: Practices and perceptions of psychology researchers. PLOS ONE, 16(5), e0252047. https://doi.org/10.1371/journal.pone.0252047

Danchev, V., Min, Y., Borghi, J. A., Baiocchi, M. & Ioannidis, J. P. A. (2021). Evaluation of data sharing after implementation of the International Committee of Medical Journal Editors Data Sharing Statement Requirement. JAMA Network Open, 4, e2033972. https://doi.org/10.1001/jamanetworkopen.2020.33972

AlNoamany, Y., & Borghi, J. A. (2018). Towards computational reproducibility: Researcher perspectives on the use and sharing of software. PeerJ Computer Science, 4, e163. https://doi.org/10.7717/peerj-cs.163

Borghi, J. A., Abrams, S., Lowenberg, D., Simms, S, & Chodacki, J. (2018) Support Your Data: A research data management guide for researchers. Research Ideas and Outcomes, 4, e26439. https://doi.org/10.3897/rio.4.e26439

Borghi, J. A. & Van Gulick A. E. (2018). Data management and sharing in neuroimaging: Practices and perceptions of MRI researchers. PLOS ONE 13(7), e0200562. https://doi.org/10.1371/journal.pone.0200562

Chassanoff, A., AlNoamany, Y., Thornton, K. & Borghi, J. A. (2018). Software curation in research libraries: Practice and promise. Journal of Librarianship and Scholarly Communication, 6(1). p.eP2239. http://doi.org/10.7710/2162-3309.2239

Le, T. M., Borghi, J. A., Kujawa, A. J., Klein, D. N., & Leung, H. C. (2017). Alterations in visual cortical activation and connectivity with prefrontal cortex during working memory updating in major depressive disorder. NeuroImage: Clinical, 14, 43-53. https://doi.org/10.1016%2Fj.nicl.2017.01.004

Systematic Reviews

Choi, J., Gomez, G. I., Kaghazchi, A., Borghi, J. A., Spain, D. A., & Forrester, J. D. (2020). Surgical stabilization of rib fracture to mitigate pulmonary complication and mortality: A systematic review and Bayesian meta-analysis. Journal of the American College of Surgeons. https://doi.org/10.1016/j.jamcollsurg.2020.10.022

Li, J., Huang, D. Q., Zou, B., Yang, H., Hui, W. Z., Rui, F., Yee, N. T. S., Liu, C., Nerurkar, S. N., Kai, J. C. Y., Teng, M. L. P., Li, X., Zeng, H., Borghi, J. A., Henry, L., Cheung, R., & Nguyen, M. H. (2020). Epidemiology of COVID-19: A systematic review and meta-analysis of clinical characteristics, risk factors, and outcomes. Journal of Medical Virology. https://doi.org/10.1002/jmv.26424

Tseng, C.-H., Hsu, Y.-C., Chen, T.-H., Ji, F., Chen, I.-S., Tsai, Y.-N., Hai, H., Thuy, L. T. T., Hosaka, T., Sezaki, H., Borghi, J. A., Cheung, R., Enomoto, M., & Nguyen, M. H. (2020). Hepatocellular carcinoma incidence with tenofovir versus entecavir in chronic hepatitis B: A systematic review and meta-analysis. The Lancet Gastroenterology & Hepatology, 5(12), 1039–1052. https://doi.org/10.1016/S2468-1253(20)30249-1

Conference Posters, Presentations, and Panels

Borghi, J. A., Ren, Y. Wong, H. & Woodward, A. (May, 2021). Delivering a flexible and on-demand instruction program (from home). Presentation given at Medical Librarians Association. Online.

Borghi, J. A. (April, 2021). Identifying the who, what, and (sometimes) where of research data sharing at an academic institution. Presentation given at csv,conf,v6. Online.

Borghi, J. A. &. Van Gulick, A. E. (April, 2021). Realizing the value of data management from the laboratory side. Presentation at the National Academies of Sciences, Engineering, and Medicine workshop: Changing the Culture of Data Management and Sharing. Online.

Borghi, J. A. & Cuddy, C. (Sept, 2019). The library as an active collaborator in meta-science, open science, and data science. Poster at Metascience. Stanford, CA.

Martin, E., Borghi, J. A., Deardoff, A., Henderson, M., Qin, J., & Read, K. (May, 2019). Beyond the data management plan: Expanding roles for librarians in data science and open science. Panel at Medical Librarians Association. Chicago, Il.

Borghi, J. A. & Van Gulick, A. E. (May, 2019). Assessing data-related practices among psychology researchers: Study design and results. Poster at Medical Librarians Association. Chicago, Il.

Borghi, J. A. & Cuddy, C. (May, 2019). Developing a data services program at Stanford Medicine. Taking a data-driven approach. Poster at Medical Librarians Association. Chicago, Il.

Borghi, J. A. & Van Gulick, A. E. (Oct, 2018). Investigating data-related practices in neuroscience, psychology, and beyond. Poster at Force11. Montreal, Canada.

Van Gulick, A. E. & Borghi, J. A. (Jun, 2018). Surveying data management practices and perceptions among neuroimaging researchers. Poster at Organization for Human Brain Mapping (OHBM), Singapore.

Borghi, J. A. Abrams, S., Lowenberg, D., Simms, S., & Chodacki, J. (Mar, 2018). Support Your Data: A data management guide for researchers. Poster at Research Data Alliance (RDA), Berlin, Germany.

Borghi, J. A. & Van Gulick, A. E. (Mar, 2018). Reproducibility begins at home: Surveying data management practices in neuroimaging. Poster at Research Data Alliance (RDA). Berlin, Germany.

AlNoamany, Y., Borghi, J. A., (Mar, 2018). Understanding researcher perspectives around software. Poster at Research Data Alliance (RDA). Berlin, Germany.

Van Gulick, A., & Borghi, J. A. (Feb, 2018). Surveying data management practices and perceptions among neuroimaging researchers. Poster at the International Digital Curation Conference (IDCC), Barcelona, Spain.

Borghi, J. A. and Lowenberg, D. (Dec, 2017). Prioritizing Researcher perspectives in driving adoption for research data management. Presentation at Coalition for Networked Information (CNI), Washington DC.

AlNoamany, Y., Borghi, J. A., Chassanoff, A., Thornton, K. (Nov, 2017). Software as a well-formed research object. Panel at Digital Library Federation (DLF). Pittsburgh, PA.

Levernier, J., Borghi, J. A., Quinless, J., Thompson, M. S. (Nov, 2017). Surveying the landscape of data governance and ethics. Panel at Digital Library Federation (DLF). Pittsburgh, PA.

Borghi, J. A., Abrams, S., Chodacki, J., Lowenberg, D., Simms, S. (Sept, 2017). Developing an RDM guide for researchers. Poster at Research Data Alliance (RDA). Montreal, Canada.

Borghi, J. A. & Van Gulick, A. E. (Sept, 2017). Surveying discipline-specific data management practices. Poster at the Research Data Alliance (RDA). Montreal, Canada.

Van Gulick, A. E. & Borghi, J. A. (Feb, 2017). Methods and metrics for the assessment of research data management maturity, adoption of software tools, and data sharing outcomes in neuroimaging. Poster at the International Digital Curation Conference (IDCC). Edinburgh, Scotland.

Borghi, J. A., Kujawa, A. J., Klein, D. N., & Leung, H. C. (Oct, 2012). MDD is related to disrupted patterns of neural activity during selective processing of faces and scenes. Poster at Society for Neuroscience (SfN), New Orleans, LA.