Job: Senior Bioinformatician - Partners Personalized Medicine, Cambridge, MA
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21 months ago by
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Senior Bioinformatician - (3084657) Description

As a not-for-profit organization, Partners HealthCare is committed to supporting patient care, research, teaching, and service to the community by leading innovation across our system. Founded by Brigham and Women’s Hospital and Massachusetts General Hospital, Partners HealthCare supports a complete continuum of care including community and specialty hospitals, a managed care organization, a physician network, community health centers, home care and other health-related entities. Several of our hospitals are teaching affiliates of Harvard Medical School, and our system is a national leader in biomedical research.

We’re focused on a people-first culture for our system’s patients and our professional family. That’s why we provide our employees with more ways to achieve their potential. Partners HealthCare is committed to aligning our employees’ personal aspirations with projects that match their capabilities and creating a culture that empowers our managers to become trusted mentors. We support each member of our team to own their personal development—and we recognize success at every step.

Our employees use the Partners HealthCare values to govern decisions, actions and behaviors. These values guide how we get our work done: Patients, Affordability, Accountability & Service Commitment, Decisiveness, Innovation & Thoughtful Risk; and how we treat each other: Diversity & Inclusion, Integrity & Respect, Learning, Continuous Improvement & Personal Growth, Teamwork & Collaboration.

General Summary/ Overview: The Bioinformatics Group at Partners Personalized Medicine (PPM) provides bioinformatics support both to clinical laboratories within the Partners HealthCare network, with its more than 6 million patients, as well as to its world-class research laboratories at the Massachusetts General Hospital (MGH), the Brigham and Women's Hospital (BWH), and the Massachusetts Eye and Ear Infirmary (MEEI). This gives the Bioinformatics Group at PPM a truly unique vantage point at the nexus of real-world therapeutics and scientific research.

We are located in the heart of Cambridge's biotechnology hub, within a short distance of powerhouses such as the Broad Institute, MIT, Harvard University, the Harvard Medical School, MGH, BWH, and MEEI, plus countless biotechnology and pharmaceutical companies. Our team members are thus easily able to partake of the many talks, workshops, symposia, and meet-ups that characterize this environment.

We are seeking a senior bioinformatician to focus on continuously advancing the state of the art in clinical and research genetic testing. This position offers an opportunity to become a part of a highly engaged team of 10 individuals that all share the same passion for translational informatics. The position involves multiple interactions across the center, including with our highly innovative IT team. Duties include building robust scalable pipelines and data mining tools for sequencing applications, as well as providing informatics support for the development of clinical diagnostic assays. Applicant will also support many of the large-scale and collaborative grant-funded activities at the center.

We are specifically looking for an independent individual who can contribute to multiple projects as part of a highly-integrated team with frequent interactions. A successful candidate should have a strong scientific and quantitative background with prior exposure to genetics and/or genomics, excellent problem-solving and programmatic skills, and the ability to effectively communicate and interact with multidisciplinary staff in a fast-paced environment.

Depending upon experience, the candidate will be considered for a Research Associate appointment at the Harvard Medical School.

Environment: Partners Personalized Medicine (PPM), a division of Partners HealthCare, is a leader and innovator helping realize the promise of personalized medicine by accelerating the integration of genetic knowledge into clinical care. PPM oversees the Laboratory for Molecular Medicine (a CLIA-certified molecular diagnostic laboratory), a Translational Genomics Core, and the Partners BioBank, in addition to being part of numerous translational research grants and consortia, including All of Us Research Program, eMERGE, and the Clinical Genome Resource.

Principal Duties and Responsibilities: - Responsible for developing and maintaining bioinformatics capabilities to support the activities of PPM, focusing on the development and support of next-generation sequencing pipelines in the research, translational and clinical settings - Scope, plan, develop, and troubleshoot new modules and pipelines for molecular genetics data - Manage and assign tasks to Associate Bioinformaticians as appropriate - Provide informatics support in development of clinical diagnostic tests using algorithms, scientific programming, and data structures - Lead the mining/annotation of translational and clinical data through novel approaches and programming skills while directly interacting with clinical and research staff, including geneticists and genetic counselors - Help oversee current clinical and research operation pipelines and serve as the primary responsible party for support of these systems, including implementing new approaches to quality assessment and troubleshooting - Lead the analysis, acquisition, and loading of new data sources, including learning about new resources and vetting their applicability to the task - Work directly with development and operation teams to identify and gather requirements for validation of bioinformatics processes. Scope out the validation strategy and identify required resources for validation. Create testing, validation, and standard operation procedure documentation. - Collaborate with the Director of Bioinformatics and others to publish results of informatics assays in scientific journals


  • Advanced degree (PhD or equivalent) in bioinformatics or related field preferred (computer science, computational biology, etc). MS degree may be considered depending on level of relevant experience
  • At least 3 years of coding experience with Python (preferred) or Perl in a UNIX/Linux environment
  • Proficiency in shell scripting and in submitting jobs in a HPC environment
  • Experience with standard bioinformatics tools
  • Experience with common bioinformatics databases and genome browsers
  • Understanding and usage of biostatistics and bioinformatics tools, including common NGS tools (e.g. BWA, samtools, Picard, GATK) and statistical/visualization packages (e.g. R, Bioperl, MATLAB)
  • Ability to work with others to set realistic goals and deliver quality work, on schedule, and with minimal supervision Excellent oral and written communication skills

Desirable Experience:

  • Experience with creating and managing databases
  • Experience with machine learning algorithms
  • Experience with automation for analysis of large, complex data sets

EEO Statement

Partners HealthCare is an Equal Opportunity Employer & by embracing diverse skills, perspectives and ideas, we choose to lead. All qualified applicants will receive consideration for employment without regard to race, color, religious creed, national origin, sex, age, gender identity, disability, sexual orientation, military service, genetic information, and/or other status protected under law.

  • Primary Location: MA-Boston-PHS - PPMHarvard
  • Work Locations: PHS - PPMHarvard 77 Avenue Louis Pasteur Boston 02115
  • Job: Biomedical
  • Organization: Partners HealthCare(PHS)
  • Schedule: Full-time
  • Standard Hours: 40
  • Shift: Day Job
  • Employee Status: Regular
  • Recruiting Department: PHS Partners Personalized Medicine
  • Job Posting: Jan 30, 2019
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