Bioinformatics Software Developer- Sequencing Analysis – NGDx


Bioinformatics Software Developer- Sequencing Analysis – NGDx
Novartis Institutes for BioMedical Research (NIBR) – Oncology
USA – Cambridge, MA

Type: Permanent
Rate: Competitive
Qualification: BSc
Number of Positions: 1
Reference: 113139BR


Description: 

We are seeking a highly motivated bioinformatics software developer to join the Novartis Next Generation Sequencing Diagnostics (NGDx) Team. The successful candidate must be self-directed and highly collaborative. The candidate will:


Build, support and execute cutting-edge pipelines for the analysis and interpretation of next-generation sequencing data
Participate in the technical development process for genomics platforms, including next-generation sequencing platforms
 

Specific Job Duties 


Design, implement, and update high-throughput automated sequence analysis & QC systems.

  • Work with other development groups to package and document new methods into existing pipelines
  • Provide support for existing analysis systems, including resolution of custom user and data retrieval requests.
  • Stay current with new bioinformatics analysis tools and software technologies.
  • Follow best practices for software version control, testing and release engineering.
  • Train biologists and other lab staff on how to use QC and Analysis systems.
  • Provide status updates in regular team meetings
  • Coordinate development work with other members of the QC and Analysis group.
  • Analyze the impact of process, hardware or software changes on production line performance.
  • Attend technical workshops and conferences related to software development and bioinformatics
     

Essential Skills: 

  • B.S. in Computer Science or a related scientific or technical field (or equivalent experience) and a minimum of five years related experience.
  • Experience with NGS tools for example BWA, GATK, CuffLinks
  • Demonstrated experience with one or more of the following programming languages: Java, Python, C#, C++, Ruby
  • Demonstrated experience with database programming and interfaces, preferably in MySQL or Oracle.
  • Demonstrated Linux shell scripting experience.
  • Used SVN, GIT or similar version control systems.
     

Desired Skills: 

  • Experience developing web-based GUI.
  • Demonstrated experience with the following: HTML, CSS & Javascript (jquery)
  • Demonstrated experience with continuous integration systems e.g. Bamboo, Jenkins etc.
  • Demonstrated experience in providing support for production software systems.
  • Experience working with bioinformatics tools and/or analysis techniques, ideally with next-generation sequencing platforms.
  • Experience with high performance and/or parallel computing.
  • Experience working with scientific users

About Novartis Institutes for BioMedical Research (NIBR) – Oncology

The Novartis Institutes for BioMedical Research is the global pharmaceutical research organization for Novartis. The NIBR research network is comprised of more than 6,000 scientists, physicians, and business professionals working together across 10 locations around the world to discover innovative medicines that treat diseases with high unmet medical need. Novartis employs more than 2,000 associates in Cambridge, making it the city’s largest private employer and ideally situated in one of the leading life science communities in the world.

NIBR conducts research globally with sites in Emeryville, California; Cambridge, MA; East Hanover, NJ; Basel, Switzerland; Horsham, UK; and Shanghai, China.

About the Next Generation Sequencing Group:The ability to sequence each patient’s genome in great detail, quickly and inexpensively, is changing the practice of medicine. At NIBR, we are dedicated to the development of therapies that improve clinical outcomes for patients. Next generation sequencing and other cutting-edge molecular characterization technologies will be important tools for discovering breakthrough therapeutics, and for delivering the right medicines to the right patients.
NIBR is launching a new Next Generation Diagnostics (NGDx) group at our global headquarters in Cambridge, MA.  The NGDx team will leverage cutting-edge technologies such as next generation sequencing for characterizing human tissues, by individual lesions and by pathway signatures relevant to therapeutic response.  The goal is to develop a robust and comprehensive molecular profile for each patient. To this end, the group will begin by developing capabilities to characterize therapeutically relevant genetic lesions and pathway signatures in human cancer.
Opportunities exist for genomics scientists, computational biologists, bioinformatics scientists, software and systems engineers, assay development scientists, histopathologists, sample technicians, and biochemists.

 




For reprints and/or copyright permission, please contact  Jay Mulhern, (781) 972-1359, jmulhern@healthtech.com.