Download Title: Computational Biologist Department: Computational Biology

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