Weekly OHDSI Digest- February 13, 2023


Please join our Feb. 14 community call (11 am ET) for our second update on Phenotype Phebruary, which is being led by Gowtham Rao and Azza Shoaibi. The phenotype discussions that were featured during Week 2 included systemic lupus erythematous (Dani Prieto-Alhambra/Joel Swerdel), acute hepatic failure (Patrick Ryan/Christian Reich), and idiopathic inflammatory myopathies (Chistopher Mecoli/Asieh Golozar). There is also an ongoing discussion on evaluation, which will be included in the update. To join or follow any of these discussions, please visit our Phenotype Phebruary homepage.

We will also have our second week of 2023 objectives & key results (OKRs) announcements from our OHDSI workgroups. On Tuesday, we will hear about the following teams: ATLAS/WebAPI (Anthony Sena), Registry (Tina Parciak), OHDSI China (Lei Liu), CDM Vocabulary Subgroup (Michael Kallfelz), Dentistry (Robert Koski), APAC Steering Group (Mui Van Zandt), GIS (Kyle Zollo-Venecek), and NLP (Hua Xu).

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


• Phenotype Phebruary continues, and there is now a homepage on OHDSI.org that contains direct links to all forum threads, as well as videos from both phenotype discussions and updates from community calls.

• #OHDSI2023 is coming Oct. 20-22, and we are looking for people to join the scientific review committee. If you are interested in helping review our community research in the leadup to our global symposium, please fill out this formThe deadline to become a committee member is Feb. 28. We ask that all former members who wish to rejoin the committee also fill out this form

• Dani Prieto-Alhambra recently 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 EHDEN Academy recently announced that its free, virtual academic program that contains 17 courses around all aspects of real-world-evidence generation has been used in more than 100 countries by nearly 3,500 course enrollees. If you are interested in learning more or getting started, please visit the EHDEN Academy homepage.

• Jenna Reps recently announced two HADES updates, OhdsiShinyModules v1.0.2 and ShinyAppBuilder v1.1.1.

• Rachael Davis is leading a network study to characterize and evaluate trends in pathways for antiretroviral therapy (ART) for individuals who have been diagnosed with Human Immunodeficiency Virus (HIV) and treated persistently over two years. She is seeking collaborators and data partners for this study. Please reach out raechel.davis@yale.edu if you are interested in collaborating or participating.

• Dani Prieto-Alhambra announced that applications are open for the 2023 Health Data Science Black Internship Programme at the University of Oxford. This will be an eight-week paid internship this summer for junior Black researchers to expand their knowledge around health data science and gain the experience needed to either begin or advance a career in the field. Learn more and apply here!

• Anna Ostropolets introduced a vocabulary landscape assessment survey to directly inform which vocabularies and activities the vocabulary team prioritizes in 2023. More information on this survey is posted below, and the deadline is Feb. 23.

• The Save Our Sisyphus Network Study event begins in late March, but we are currently looking for an interesting research question to kick off this event. If you have one and would like to serve as P.I. for this global collaboration, please fill out this form.

• DevCon is returning in 2023. After our successful first event last year, DevCon 2023 will be held April 21 within the Teams environment. Calendar invites will be sent out at a later date.

• ICPE 2023 will be held in person Aug. 23-27 at the Halifax Convention Center in Nova Scotia, Canada. The call for abstracts is happening right now, and the deadline is Feb. 13, 2023.

• The CBER BEST Seminar Series returns Wednesday, Feb. 8, at 11 am ET, as 2022 Titan Award recipient Fan Bu will provide a presentation on Bayesian Safety Surveillance with Adaptive Bias Correction. More information and a registration link is available here.

• All workgroups should plan to share their 2023 OKRs during a February community call. If you are a workgroup lead, please sign up for a 3:00 minute slot on one of the four calls using this form.

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: ICD10–SNOMED mapping pitfalls: Post-coordinated expressions and concept sets (Sigfried Gold)

Tuesday: Developing a frailty concept in the OMOP CDM among sexual minority older adults (age 50+) in the All of Us database (Brianne Olivieri-Mui)

Wednesday: Syntactic and Semantic Harmonization of the French National Healthcare Database (SNDS) (Lorien Benda)

Thursday: Using data augmentation for NER-RE joint learning tasks for clinical history information extraction (Xiaodong Zhu)

Friday: Using dbt – a free and open-source software – to transform data into OMOP CDM in the ETL process (Thanapat Pitchayarat)


The Columbia University Department of Biomedical Informatics (DBMI) seeks 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.

• Georgina Kennedy shared a recent opportunity for a PhD student at the University of New South Wales, Sydney, to join in a project to understand the current use and future potential of real-world data to measure, explain and respond to variation in clinical cancer care. This funded position comes with a living costs stipend, and a technical background is required. You can learn more about the position/project here, and you can reach out to georgina.kennedy@unsw.edu.au for more information.

• Dani Prieto-Alhambra recently shared an opening for a Database Programmer to join the Health Data Sciences research group at the University of Oxford. According to the posting, you will develop new database applications for big clinical data to meet project requirements and deadlines, provide software feedback and carry out software improvement, extension, integration and further development on existing code. You will contribute to the harmonisation, curation, and processing of large clinical datasets and develop code to validate, test, document and maintain database applications. The full ad and application link are available here, and the closing date is Feb. 27, 2023.

• The Observational Health Data Analytics (OHDA) team at Janssen Research & Development recently opened up three new internships for the coming year, 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. Within this role, interns will work on a project that seeks to develop phenotypes of interest for Janssen CVM development programs using the OMOP CDM and to use evaluation methods to characterize them according to performance and portability to different datasets. The interns will gain relevant experience in development and systematic evaluation of phenotypes in large RWD.


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