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Title: Computational Biologist Department: Computational Biology Reporting To: Assoc. Director, Computational Biology Methods SUMMARY OF POSITION Foundation Medicine seeks a talented and highly motivated Computational Biologist to develop, optimize, and implement data analysis pipelines and analytical tools that enable comprehensive tumor genomic profiling as a diagnostic product. PRIMARY RESPONSIBILITIES AND ESSENTIAL DUTIES Work with a group of bionformaticians, molecular biologists and software engineers focused on the using massively parallel sequencing technology for the characterization of genetic alterations present in tumor genomic DNA and RNA Develop algorithms to identify mutations, chromosomal copy number alterations, rearrangements, or other relevant molecular features/signatures in tumor DNA and RNA derived from clinical cancer specimens Work with the production team to develop scalable protocols that enable high-throughput interpretation of sequencing data for dozens of samples in parallel with minimal computational time/cost Process, analyze and interpret high volumes of data as part of internal and external scientific studies. Develop automated methods and software to support large-scale bioinformatics analysis Develop and implement analytical tools capable of troubleshooting the technical steps and filtering poor quality sequencing information Monitor performance characteristics of published and emerging analytical pipelines and mutation detection algorithms Monitor and evaluate analytical avenues for new/emerging sequencing technologies Present scientific and technical data/progress/innovations to both internal and external scientific colleagues in a clear and cohesive manner. Work independently and prepare timetables, deliverables, and project schedules REQUIRED SKILLS AND EXPERIENCE Fluency in programming and scripting languages is required (C++, Java, Python, Perl) Experience in developing algorithms for analysis of biological data. Experience in algorithm development for analysis of massively parallel sequencing data (DNA-seq, RNA-seq) is highly desirable. A track record of achievement in the academic setting Strong scientific understanding of molecular biology and genomics Ability to work in a multidisciplinary, fast-paced, dynamic and results-oriented startup environment Ability to present data to a multidisciplinary audience in a clear and cohesive manner Excellent teamwork, time management and organizational skills DESIRED SKILLS AND EXPERIENCE Experience in cancer research, including a working understanding of computation approaches for cancer genome analysis, is highly desirable EDUCATION OR EXPERIENCE Ph.D. in Bioinformatics, Computational Biology, Computer Science or related fields 2-3 years of industry experience. Equivalent post-doctoral experience will be considered. ABOUT FOUNDATION MEDICINE Foundation Medicine is a molecular information company dedicated to a transformation in cancer care in which treatment is informed by a deep understanding of the genomic changes that contribute to each patient’s unique cancer. The company’s initial clinical product, FoundationOne™, is a fully informative genomic profile to identify a patient’s individual molecular alterations and match them with relevant targeted therapies and clinical trials. One Kendall Square, Suite B3501 Cambridge Massachusetts 02139 TEL 617.418.2200 FAX 617.418.2201 Title: Computational Biologist Department: Computational Biology Reporting To: Assoc. Director, Computational Biology Methods Foundation Medicine’s molecular information platform aims to improve day-to-day care for patients by serving the needs of clinicians, academic researchers and drug developers to help advance the science of molecular medicine in cancer. NOTE TO EMPLOYMENT AGENCIES Foundation Medicine values our relationships with our Recruitment Partners and will only accept resumes from those partners whom have been contracted by a member of our Human Resources team to collaborate with us. Foundation Medicine is not responsible for any fees related to resumes that are unsolicited or are received by any employee of Foundation Medicine who is not a member of the Human Resources team. One Kendall Square, Suite B3501 Cambridge Massachusetts 02139 TEL 617.418.2200 FAX 617.418.2201