Weekly OHDSI Digest-March 27, 2023


Please join our March 28 community call (11 am ET) for the official kickoff of our Save Our Sisyphus Challenge. This session will provide an overview of how the two-month event will take place and announce the featured studies before moving into the first tutorial of the challenge, Initiating A Network Study. This call will be led by:

• Marc Suchard (Professor, Departments of Biomathematics and Human Genetics, UCLA)

• Jody-Ann McLeggon (Program Manager, Columbia University)

Everybody is invited. Calendar invites went out last week. If you did not receive one, please use this link to join the meeting. All recordings from these weekly calls will be posted on both our main OHDSI Teams tenant and on our OHDSI.org Community Calls page.


Upcoming Workgroup Calls – OHDSI


Congratulations to the team of Aniek Markus, Victoria Strauss, Edward Burn, Xintong Li, Antonella Delmestri, Christian Reich, Can Yin, Miguel Mayer, Juan-Manuel Ramírez-Anguita, Edelmira Marti, Katia Verhamme, Peter Rijnbeek, Daniel Prieto-Alhambra and Annika Jödicke on the publication of Characterising the treatment of thromboembolic events after COVID-19 vaccination in 4 European countries and the US: An international network cohort study in Frontiers of Pharmacology.

Congratulations to the team of Turki Abdulaziz Althunian, Meshael M Alrasheed, Fatemah Alnofal, Rawan T Tafish, Mahmood A Mira, Raseel A Alroba, Mohammed W Kirdas, and Thamir M Alshammar on the publication of Recording type 2 diabetes mellitus in a

standardised central Saudi database: a retrospective validation study in BMJ Open.


Aniek Markus , lead author of the afore-mentioned study, is pursuing her PhD at the department of Medical Informatics with a focus on explainable artificial intelligence at Erasmus University Rotterdam. She discussed her journey to health data science, her focus on explainable AI, and how OMOP and OHDSI tools are assisting her research career, in the latest OHDSI Collaborator Spotlight.

The next edition of the Early-Stage Researchers Career Speaker Series will be held Monday, April 10, from 11 am – 12 pm ET, and it will feature a conversation with Anna Ostropolets, a Titan Award honoree as an original leader with the vocabulary team and a DBMI PhD graduate whose interests include bias adjustment in phenotyping and evidence generalizability (Phoebe and KEEPER), as well as point of care evidence generation (Data Consult Service). You can join the meeting using this link.

Registration and the call for participation has opened for the 2023 Global Symposium, which will be held Oct. 20-22 in East Brunswick, New Jersey, USA, at the Hilton East Brunswick Hotel & Executive Meeting Center. Check out the event homepage for more information and registration/call for collaboration links.

The 2023 APAC Symposium agenda is now posted on the event homepage. The main conference will be held July 13 with sessions focused on OHDSI Global, Research, and OHDSI APAC, while there will be tutorials held on July 14. The call for collaboration is happening now, while registration details will be available shortly.

The agenda and meeting link for DevCon 2023 is now available at the event homepage. The event will last from 9 am – 3 pm on April 21 and will feature 11 short talks around five topics (see agenda on the homepage) in the morning, followed by a trio of afternoon workshops that focus on significant topics for sustained success within our open-source community. Thank you to Adam Black and Paul Nagy for organizing this event.

Last week, Martijn Schuemie hosted the latest CBER BEST Seminar Series with a talk on Negative controls and p-value calibration in RWE generation. If you missed the talk — or want to see it again — the video is now available. The next session will be held April 12 and will be led by Kaat Bollaerts; you can register for that seminar here.

Dani Prieto-Alhambra shared that the Health Data Sciences section of the Oxford University Botnar Research has created five Trueta bursaries for the residential one-week summer school in Real World Evidence, held June 19-23, 2023. These bursaries will cover free attendance to the Oxford Summer School 2023: Real World Evidence using the OMOP Common Data Model and accommodation (including breakfast and dinner) in Lady Margaret Hall facilities for the duration of the course. To learn if you are eligible for one of the bursaries and to apply, please visit this homepage. The closing date is Friday, March 31.

HADES Development Announcements

• Martijn Schuemie announced the release of SqlRender 1.13.0, with a single bugfix for Netezza.

• Egill Fridgeirsson announced the release of DeepPatientLevelPrediction 1.1.1, which has both bug fixes and several new features: an automatic learning rate finder has been implemented, used by setting learningRate=“auto”; training loop parameters are now handled by a new settings object and as a result more of the training loop parameters are customizable by the user; custom metrics can be created by the user to use for early stopping and learning rate schedule; and seeds have been added in various places, making the whole process more reproducible

Thank you to all HADES developers for their continued work to maintain and enhance OHDSI open-source software. For more information on these or future releases, please visit this thread on the OHDSI forums.

OHDSI Social Showcase

 The #OHDSISocialShowcase continues this week, as all the research from the OHDSI Symposium collaborator showcase will be presented on the Twitter and LinkedIn social feeds over the next several months. You can see the research and the respective leads that will be shared this week.

Monday: How Health Systems Can Create Value by Adopting the OMOP CDM (John Methot)

Tuesday: Best practices for prognostic model development using observational health data: a scoping review (Cynthia Yang)

Wednesday: Serverless CDM in OHDSIonAWS (Ashwini Davison)

Thursday: A simplified ETL approach to transforming the MIMIC database into the OMOP Common Data Model in SQLite (Luis Alberto Robles Hernandez)

Friday: PULSNAR: Positive Unlabeled Learning Selected Not At Random –towards imputing undocumented conditions in EHRs and estimating their incidence (Praveen Kumar)


The 2023 OHDSI Global Symposium will be held Oct. 20-22 at the NEW location of the Hilton East Brunswick Hotel & Executive Meeting Center in East Brunswick, N.J. Registration ia now open! Check out the symposium homepage for more information and the registration link.

The 2023 European Symposium — titled “Full Steam Ahead” — will be held July 1-3 in Rotterdam. The main conference will be held Monday, July 3, while there will be tutorials on the weekend of July 1-2. More information and registration links will be posted when available.

The 2023 Asia-Pacific (APAC) Symposium will be held July 13-14 at the University of New South Wales in Sydney, Australia, and it will follow MedInfo 2023 (July 8-12 in Sydney, Australia). Submissions are now open for the APAC Symposium, and they will close March 31. More information can be found on the homepage.

The 2023 AMIA Symposium will be held Nov. 11-15 in New Orleans, La., and the annual call for participation is underway. Proposals are being accepted for papers, podium abstracts, panels, posters, debates, demos and workshops. The deadline is TOMORROW, March 21, 2023.

Andrey Soares and Asiyah Lin are co-chairs of workshops and tutorials for the 2023 International Conference on Biomedical Ontology , a hybrid event which will be hosted Aug. 28-Sept. 1 by the University of Brasilia. If you would like to submit a workshop or tutorial, the deadline is April 3.


Ajit Londhe shared a recent forum post announcing a position for Senior Associate Director, Real World Data & Analytics at Boehringer Ingelheim. The purpose of this position is to: generate real world evidence (RWE) to support in-line and pipeline products; provide statistical advice on the analysis of real world data (RWD) to various internal and external stakeholders; contribute to the RWD acquisition strategy and tool evaluation; and participate in the development and presentation of RWE trainings. More information and an application link are available here.

• Dina Gifkins also posted an opening on the forums for the position of Associate Director, Epidemiology, at Janssen Research & Development. Among the primary responsibilities would be to: assist with identifying research study needs, drafting proposals and protocols, and contributing to epidemiology and real world data strategy and study conduct across the clinical development program; conduct literature reviews and synthesis; provide assistance to clinical teams with study design; and identify and evaluate data resources to meet therapeutic needs; and work closely with other colleagues in the Epidemiology department when defining research questions, developing epidemiological protocols, and implementing solutions. More information and an application link are available here.

• Justin Starren announced that the Successful Clinical Response In Pneumonia Therapy (SCRIPT) Systems Biology Center (SCRIPT) is hiring a postdoctoral fellow to work at the intersection of systems biology and clinical data management. The fellow will collaborate with an interdisciplinary team of clinicians, biologists, geneticists, and data scientists to develop tools to improve the management of multifaceted data to support systems biology research. Candidates should have strong software development skills and an MD or PhD with research experience with Electronic Health Record data. Experience with Common Data Models, such as OMOP CDM from OHDSI, is preferred. More information is available here.

• Andrew Williams announced an opening for a Software Developer Analyst II at the Tufts Clinical and Translational Science Institute (CTSI). This position will be responsible for executing software development initiatives, including collaborating with various stakeholders to understand requirements and design solutions, evaluating options and developing technical designs, and developing solution using appropriate programming language and/or technical tools.

• Noémie Elhadad shared that the Columbia University Department of Biomedical Informatics (DBMI) is seeking exceptional junior-level faculty members in the tenure track. The positions are open to researchers interested in developing and applying informatics theory and achieving tangible benefits to health care and biology. Three particular foci are (1) machine learning for healthcare and health-related data science, (2) health information technology-based interventions to improve health care and the health of individuals and populations, and (3) translational bioinformatics. DBMI serves as the coordinating center for OHDSI; more information and an application link are posted here.

• The Observational Health Data Analytics (OHDA) team at Janssen Research & Development recently opened up five new internships for the coming summer, with each lasting at least 10 weeks and starting around the middle of May. There are openings for an epidemiology graduate interna graduate intern, and an undergraduate intern; check out the respective links for more information and an application link. Janssen also announced two summer internships for a Data Science RWE for R&D position, and a Data Science RWE DevCon position.

• The Center for Computational Life Sciences at Cleveland Clinic offers an opportunity for a visionary Senior Faculty to establish our biomedical research and healthcare system as a global leader in Artificial Intelligence Research (AI). This Senior Faculty position will shape and expand AI technologies and applications centered around biomedical science and healthcare, supported by strong institutional commitment to build their vision. More information is available here.


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