Bioinformatician III - Program in Systems Biology

Organization
UMass Medical School
Job Location
Worcester, MA 01605
Job Description

GENERAL SUMMARY OF POSITION:

Welcome to the Program in Systems Biology at the University of Massachusetts Medical School. Our program is one of the newest initiatives on campus and aims to explore the mechanisms and principles of biological complexity. This is an exciting time for systems biology, with rapid technological advances in many fields including genomics, computational biology, imaging, mass-spectroscopy and bioinformatics. Research in the program develops and leverages technological breakthroughs in these areas to explore the biology of complex systems. Today’s scientific research in general, and systems biology in particular, is increasingly multi-disciplinary. Therefore, we aim to create an intellectually diverse environment where combining different fields is encouraged and where students, post-doctoral fellows and faculty from different backgrounds work together in a collegial and interactive atmosphere.

 

Under the general direction of faculty, the Bioinformatician level III is responsible for the design, development, evaluation and iterative modification of a technical infrastructure to expedite the quantitative evaluation of data resulting from studies that are laboratory based. The position will entail the establishment and maintenance of applicable in-house bioinformatics resources and interaction with individual lab members on customized research projects, as well independent projects that are solely computational. All functions will be under the guidance and direction of the P/I and a senior memebr of the team.

 

The Bioinformatician will also be responsible for conducting the following duties:

 

  • Generate customized programming solutions to improve user interaction with available bioinformatics resources
  • Implementation and adaptation of programs for high-throughput sequencing data analysis, statistical analysis of data and for data visualization
  • Develop, implement and maintain custom designed computational solutions relevant for ongoing lab-based projects
  • Develop, implement and maintain computational methods for meta-analysis of data generated in the lab as well as publicly available data
  • Interact with a high-performance computing cluster (LSF) to schedule standard data processing pipelines and data analysis workflows

 

 

 

 

 

Requirements

MAJOR RESPONSIBILITIES:

  • Design and implement reusable bioinformatics analysis pipelines for processing next-generation sequencing, microarray, genomics, proteomics and chemogenomics data
  • Integrate computational methods/pipelines with high performance computing clusters
  • Collaborate closely with PIs and their lab members on research projects including defining the scope of the collaboration, researching on the scientific topics and implementing the appropriate bioinformatics solutions that meet timelines
  • Participates in the oral presentation of all project findings and abstracts including participation in periodic project status meetings and presentation of final project deliverables.
  • Develop rapid prototypes and custom scripts for one-off type of analysis requests
  • Develop novel algorithms and integrated data visualization applications when existing software packages are not available or adequate
  • Properly document the procedures used in computational analysis and provide summary report of results suitable for inclusion in manuscript and grant applications
  • Local establishment and customization of genomic, proteomics databases and provide batch analysis utilities that make use of these resources
  • Develop custom databases and web portals for managing raw and processed experimental data
  • Provide bioinformatics training and workshops for analysis pipelines and in-house developed software applications
  • Coordinate and collaborate with other bioinformaticians, biostatisticians, information technology professionals, and interdepartmental project teams.
  • Perform other duties as required.

 

REQUIRED QUALIFICATIONS:

  • Master's degree in Computer Science, a related computational discipline, or equivalent experience
  • 2 years bioinformatics-related research experience
  • Proven research record such as co-authorship on peer-reviewed publications required
  • Strong background in programming. Fluent in one programming language (Java or C/C++) and one scripting language (shell, Perl or Python)
  • Knowledge in biostatistics packages (R or Matlab) and SQL queries are strongly suggested
  • Strong communication skills, both the oral and written necessary to interact with a wide range of individuals

*LI-JM1

 

UMass Medical School is committed to being an equal opportunity and affirmative action employer and recognizes the power of a diverse community. We encourage applications from protected veterans, individuals with disabilities and those with varied experiences, perspectives and backgrounds to consider UMass Medical School as their employer of choice.

How to Apply

Students whose classmates are interested in science are more likely to think about a career in science, technology, engineering, and mathematics, a new study says.

CNBC reports that the genetic counseling field is expected to grow as personalized medicine becomes more common.

Gladys Kong writes at Fortune that her STEM background has helped her as a CEO.

Social scientists report that the image of the 'lone scientist' might be deterring US students from STEM careers.