Bioinformatics Engineer II (hybrid Opportunity)

Bioinformatics Engineer II

The Department of Medicine, Division of Cardiovascular Medicine at Stanford University is seeking a talented Bioinformatics Engineer to join the Bioinformatics Core (BIC) of the Molecular Transducers of Physical Activity Consortium (MoTrPAC). As part of this groundbreaking national research consortium, you will help unravel the molecular mechanisms underlying the benefits of physical activity. Under the supervision of co-PIs Dr. Euan Ashley and Dr. Matthew Wheeler, you will play a crucial role in shaping the future of personalized exercise science and public health.

Dr. Euan Ashley's research interests focus on the application of genomics and other omics data to improve clinical care, with an emphasis on cardiovascular disease and personalized medicine. Dr. Matthew Wheeler's research centers on the integration of large-scale molecular and clinical data to understand the genetic basis of cardiovascular diseases and to develop novel therapeutic strategies. As a key member of the MoTrPAC team, your expertise in data engineering and bioinformatics software development will form the bedrock of our research infrastructure. You will be responsible for architecting and implementing the scalable data pipelines, standardized data models (like OMOP), and robust bioinformatic applications that transform raw, complex omics data into clean, analysis-ready datasets for the entire consortium.

Your work is critical for our team to apply advanced statistical and machine learning methods, directly contributing to our understanding of complex biological systems and the development of personalized medicine. This innovative project integrates large volumes of clinical and densely time-sampled molecular data, pushing the boundaries of biomedical data analytics.

Working alongside our multidisciplinary team, you will be at the forefront of understanding how physical activity preserves and improves health, ultimately making a lasting impact on human well-being.

Responsibilities include:

• Data Engineering & ETL Pipelines: Engineer, maintain, and enhance robust ETL (Extract, Transform, Load) pipelines to process, clean, and map diverse data types.
• Data Standardization: Lead the transformation of MoTrPAC clinical data into standardized formats like the OMOP Common Data Model (CDM), enabling large-scale, federated data analysis and integration.
• Scientific Visualization Workflows: Develop and automate workflows to generate scientific visualizations that support biological interpretation by our research team.
• Bioinformatics Tooling & Software Development: Refactor, extend, and package bioinformatic tools to streamline complex processes.
• Data Management and Tracking: Design and implement data tracking systems to provide clear visibility into the status of raw and processed assays across cloud storage environments.
• Collaboration and Communication: Collaborate with a multidisciplinary team to interpret large-scale multi-omics data and prepare reports and presentations.

Duties include:

• Prioritize and extract data from a variety of sources.
• Determine additional data collection and reporting requirements.
• Design and customize reports based upon data in the database.
• Use system reports and analyses to identify and correct problematic data.
• Create complex charts and databases, perform statistical analyses, and develop graphs and tables for publication and presentation.
• Serve as a resource for non-routine inquiries.
• Test prototype software and participate in approval and release process for new software.
• Provide documentation based on audit and reporting criteria.

Why Join Us?

• Work on a highly exciting and innovative multi-omics project.
• Be part of a world-class research team at Stanford University.
• Contribute to groundbreaking research with a significant impact on public health.
• Enjoy a collaborative and stimulating work environment at one of the top universities in the world.

If you are a passionate and dedicated professional with the required qualifications and a strong interest in advancing scientific research, we encourage you to apply for this exciting opportunity. Join us in unraveling the mysteries of physical activity and making a lasting impact on human health.

A complete application will include a cover letter. This is a hybrid eligible position.