Bioinformatics Software Engineer

Job Details

Job ID:

450 Brookline Ave, Boston, MA 02215


Employment Type:
Full time

Work Location:
Hybrid: 2-3 days onsite/week


The Department of Informatics and Analytics at Dana-Farber Cancer Institute is seeking a highly motivated Bioinformatics Software Engineer who is passionate about leveraging molecular data to advance clinical care for cancer patients and contribute to groundbreaking discoveries through genomic data integration and analysis. This position offers a unique opportunity to work on building a robust data pipeline framework for integrating diverse molecular genomics data into the DFCI enterprise molecular data mart. Additionally, the successful candidate will play a key role in an exciting initiative to develop a cutting-edge cloud-based bioinformatics analysis platform.

Located in Boston and the surrounding communities, Dana-Farber Cancer Institute (DFCI) brings together world renowned clinicians, innovative researchers and dedicated professionals, allies in the common mission of conquering cancer, HIV/AIDS and related diseases. Combining extremely talented people with the best technologies in a genuinely positive environment, we provide compassionate and comprehensive care to patients of all ages; we conduct research that advances treatment; we educate tomorrow's physician/researchers; we reach out to underserved members of our community; and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.


  • Contribute to the design and development of data pipelines for processing molecular genomics data from external and internal sources.
  • Collaborate closely with Enterprise Data Warehouse (EDW) engineers and developers to deploy and maintain data pipelines responsible for loading molecular genomics data into DFCI EDW.
  • Work with bioinformaticians and computational biologists to build and enhance molecular data processing pipelines and workflows, ensuring portability across both on-premises high-performance computing and cloud environments.
  • Actively participate in designing scalable, highly available, secure, and cost-effective cloud-based solutions.
  • Design, implement, and maintain scalable pipeline workflows to automate multi-step computing tasks required for various data analysis scenarios.
  • Develop and maintain automated tests and monitoring processes to ensure successful pipeline execution and deployment.
  • Assist product management in documenting system requirements, design, and troubleshooting.
  • Provide technical support to end-users for pipeline deployment and execution.
  • Apply industry best practices, acting as an advocate for coding standards and test-driven development.
  • Mentor junior team members.


· Bachelor’s degree required, MS preferred, in Bioinformatics, Computational Biology, Data Science, Computer Science, Software    Engineering, or related discipline.

· Demonstrated proficiency with Python, Java, and/or other relevant languages.

· Familiarity with molecular data formats (VCF, MAF, BAM, etc) and genomic analysis workflow standards and tools (WDL or CWL,    Cromwell, Nextflow).

· Experience building data pipelines in cloud or hybrid environments.

· Proficiency with Linux environments, shell scripting, and command-line tools.

· Experience with software development and Agile processes is a strong plus.

· Proficient working with SQL databases (SQL Server preferred).

Skills and Attributes:

· Enthusiastic about data security, process automation, and innovation.

· Familiarity with distributed code versioning tools such as Git, GitHub, Bitbucket.

· Detail-oriented with the ability to gain a deep understanding of technical systems.

· Excellent interpersonal skills and a passion for innovative solutions.

If you are a dynamic professional looking to make a significant impact in the field of bioinformatics and contribute to advancements in cancer research, we invite you to join our collaborative and innovative team at Dana-Farber Cancer Institute. Apply now to be part of an organization dedicated to conquering cancer through groundbreaking research and exceptional patient care.

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 characteristics protected by law.

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