Postdoctoral Researcher in AI-Driven Data Curation and Data Integration

University of Pennsylvania Perelman School of Medicine; Erie (Erie County); On-site; USD 55,000 - 70,000; Full time

Job summary

The Wagenaar Lab at the University of Pennsylvania Perelman School of Medicine invites applications for a Postdoctoral Researcher to advance AI-enabled data curation using Common Data Elements and large biomedical datasets.

The role spans collaboration with the Pennsieve development team to design reproducible, scalable curation workflows and to contribute to peer-reviewed publications and open-source resources in data stewardship and reuse.

Qualifications

• Ph.D. preferred or Master’s degree in Biomedical Informatics, Computer Science, Data Science, or related field.
• Experience with machine learning, NLP, or AI applied to structured/unstructured data.
• Familiarity with Common Data Elements or ontology-based data representation is a plus.
• Strong programming skills in Docker, Python, Go, Java, or related languages.
• Experience with large-scale biomedical/clinical datasets and cloud processing (AWS preferred).

Responsibilities

• Develop AI-based methods and deploy at scale to automate data curation using CDEs.
• Design workflows to harmonize and enrich public datasets across disease programs.
• Create visualization and interaction tools for complex biomedical datasets.
• Integrate curation methods into scalable cloud-based platforms.
• Collaborate with Pennsieve and partners to align with real research workflows.
• Prepare manuscripts, technical docs, and presentations describing methods and outcomes.

Skills

Python

Docker

Go

Java

Machine Learning

NLP

Cloud AWS

Interdisciplinary collaboration

Education

PhD or Master’s in a related field

Tools

Pennsieve

Job description

University of Pennsylvania: Postdoctoral Positions: Perelman School of Medicine Postdoctoral

Location: University of Pennsylvania - Perelman School of Medicine

Open Date: Jun 02, 2026

Faculty Mentor: Joost Wagenaar

Department: Informatics

Number of Positions: 2

Open to applications from US Citizens and foreign nationals.

The Wagenaar Lab is seeking a highly motivated Postdoctoral Researcher to conduct research at the intersection of artificial intelligence, common data elements (CDEs), and large-scale biomedical datasets. The Wagenaar Lab is jointly based in the Institute for Biomedical Informatics and the Department of Biostatistics, Epidemiology, and Informatics at the University of Pennsylvania, and leads the academic development of the Pennsieve scientific data platform. The lab's mission is to create scalable, sustainable infrastructure that enables data integration, reuse, and discovery across clinical and scientific research domains.

This postdoctoral position will focus on developing AI-enabled methods to automate and augment data curation, with an emphasis on leveraging CDEs to improve the usability, interoperability, and scientific value of public datasets. The successful candidate will work across disease areas—including Epilepsy, Immune Health, and programs within the NIH HEAL Initiative—to design approaches that harmonize heterogeneous datasets, enrich metadata, and support scalable data exploration.

The Postdoctoral Researcher will work closely with the Pennsieve development team and a broad network of scientific collaborators to translate industry best practices in data engineering and AI into the academic research ecosystem. A central goal of this role is to move beyond manual, project-specific curation toward reproducible, automated, and extensible curation workflows that can be applied across datasets, programs, and institutions.

In addition to platform and method development, the Postdoctoral Researcher is expected to contribute to peer-reviewed publications, open-source software, and community-facing resources that advance AI-enabled data stewardship and reuse.

Responsibilities

• Develop AI-based methods and deploy them at scale to automate and augment data curation using Common Data Elements
• Design workflows to harmonize, validate, and enrich public datasets across Epilepsy, Immune Health, and NIH HEAL programs
• Develop novel mechanisms to interrogate, visualize and interact with complex scientific datasets and increase the value of these datasets for the scientific community.
• Integrate curation methods into scalable, cloud-based scientific data platforms
• Collaborate with the Pennsieve development team and scientific partners to align methods with real research workflows
• Evaluate and validate curation approaches using large, heterogeneous public datasets
• Prepare manuscripts, technical documentation, and presentations describing methods and outcomes.

Qualifications

• Ph.D. (preferred) or Master's degree in Biomedical Informatics, Computer Science, Data Science, Bioinformatics, or a related field
• Experience with machine learning, natural language processing, or AI applied to structured and unstructured data
• Familiarity with Common Data Elements, data standards, or ontology-based data representation (preferred)
• Strong programming skills in Docker, Python, Go, Java, or related languages
• Experience working with large-scale biomedical or clinical datasets
• Experience with cloud-based data processing and scalable analytics environments (AWS preferred)
• Strong written and verbal communication skills and an interest in interdisciplinary collaboration