Senior Bioinformatics Java Engineer, cBioPortal for Cancer Genomics

Job Details

Share This Job
Job ID:

450 Brookline Ave, Boston, MA 02215


Employment Type:
Full time

Work Location:
Full Remote: Never on Campus


The Knowledge Systems Group (KSG) at DFCI is currently seeking a Senior Bioinformatics Java Engineer to contribute to the open source cBioPortal for Cancer Genomics.

The cBioPortal for Cancer Genomics is the leading visualization and analysis tool for cancer genomics.  It is an open-source software platform that enables interactive, exploratory analysis of large-scale cancer genomics data sets with a biologist-friendly interface. It integrates genomic and clinical data and provides a suite of visualization and analysis options. Currently, the cBioPortal has more than 70 local installations and sees more than 35,000 unique visitors a month.  Complete details are available at:

We are seeking a Senior Bioinformatics Java Engineer with very strong Java and database expertise and a demonstrated track record of building bioinformatics platforms.

Located in Boston and the surrounding communities, Dana-Farber Cancer Institute is a leader in life changing breakthroughs in cancer research and patient care. We are united in our mission of conquering cancer, HIV/AIDS and related diseases. We strive to create an inclusive, diverse, and equitable environment where we provide compassionate and comprehensive care to patients of all backgrounds, and design programs to promote public health particularly among high-risk and underserved populations. We conduct groundbreaking research that advances treatment, we educate tomorrow's physician/researchers, and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.


  • Serve as the primary architect and software mentor for all backend cBioPortal services.
  • Build backend services and APIs in Java and Spring.
  • Lead back-end performance tuning and optimization.
  • Orchestrate and maintain services via modern devops frameworks.
  • Build new bioinformatics features and visualizations within cBioPortal.
  • Write automated test suites and perform code reviews.
  • Maintain full documentation regarding architecture, code and devops services.
  • Interact, communicate and prioritize features via agile development processes.
  • Work closely with the project lead and other stakeholders to ensure that systems evolve based on continuous feedback.
  • Communicate effectively with scientists, computational biologists, and other non technical stakeholders.


Required Skills & Experiences:


  • Bachelor's, Masters, or PhD Degree in Computer Science or a related field
  • 5+ years experience in software engineering
  • Expertise in Java 8 and Maven.
  • Expertise in Spring 5.x and Spring Boot 2.x.
  • Demonstrated track record of building bioinformatics platforms.
  • Experience in performance tuning and optimization.
  • Working knowledge of relational databases, especially MySQL.
  • Experience with containerization of software (e.g. Docker).
  • Experience managing or mentoring direct reports.
  • Experience in modern software development technologies, including distributed versioning systems, continuous integration, and agile programming practices.

The candidate must also demonstrate strong communication skills, outstanding personal initiative, and the ability to work effectively as part of a team. Ability to meet deadlines and efficiently multitask is a must.

Desired Skills:

The following skills are not required, but are significant pluses.  If you do not have these skills, we can also provide training during your first year.

  • TypeScript and React
  • Mobx (Javascript state management)
  • Java 17
  • MyBatis
  • Kubernetes
  • User interaction (UI) design and/or experience in data visualization.

Hybrid / Remote Work Options

For this position, we are open to remote or hybrid workers in Massachusetts, New Hampshire or Rhode Island.

At Dana-Farber Cancer Institute, we work every day to create an innovative, caring, and inclusive environment where every patient, family, and staff member feels they belong.  As relentless as we are in our mission to reduce the burden of cancer for all, we are equally committed to diversifying our faculty and staff.  Cancer knows no boundaries and when it comes to hiring the most dedicated and diverse professionals, neither do we. If working in this kind of organization inspires you, we encourage you to apply.

Dana-Farber Cancer Institute is an equal opportunity employer and affirms the right of every qualified applicant to receive consideration for employment without regard to race, color, religion, sex, gender identity or expression, national origin, sexual orientation, genetic information, disability, age, ancestry, military service, protected veteran status, or other groups as protected by law.

Follow Dana-Farber on Social Media