Bioinformatician - Open Rank

University of Massachusetts Medical School•Worcester, MA

41d

About The Position

Under the direction of a member of the faculty, the Bioinformatician 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 the solely computational. This is an open-rank posting (there are 4 levels of Bioinformatician) - candidates will be hired into the level commensurate with their experience.

Requirements

BS in computer science or a related discipline
0-1 year of related experience
Strong background in statistical methodology, software languages and computer systems (Perl, C++, R, MySQL, etc.)
Experience in writing basic search algorithms and the ability to generate new algorithms and programs for custom data manipulation and analysis
Excellent communication skills, both oral and written, and interpersonal skills necessary to interact with a wide range of individuals
Requirements noted for Bioinformatician I plus:
1-3 years of related experience
Requirements noted for Bioinformatician I plus:
Master's degree in Computer Science, a related computational discipline, or equivalent experience
1-3 years of 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)
Strong communication skills, both the oral and written necessary to interact with a wide range of individuals
Requirements noted for Bioinformatician I plus:
Master's degree in Bioinformatics, Computer Science, or related computational discipline
3-5 years bioinformatics-related research experience
Highly self-motivated and demonstrated ability to manage internal and external collaborations

Nice To Haves

Co-authorships on peer-reviewed publications are strongly suggested but not required
Knowledge in biostatistics packages (R or Matlab) and SQL queries are strongly suggested
Knowledge in biostatistics packages (R or Matlab) and SQL queries preferred

Responsibilities

Establish general bioinformatics resources for day-to-day use by members of the laboratory
In collaboration with a faculty member, generate customized programming solutions to improve user interaction with available bioinformatics resources
Assist in the implementation of programs for microarray analysis, high-throughput sequencing data analysis, cis regulatory motif identification, and multi-genome protein motif searches
Local establishment and customization of model organism genomic databases and tools for batch sequence analysis utilizing these resources
Interpret and present study results in support of laboratory members
Provide tabular and written summaries of approaches and analyses in a form suitable for inclusion in manuscripts or grant applications, as well as media for presentation at scientific meetings
Develop and implement custom bioinformatics programming solutions in collaboration with lab as necessary
Coordinate and collaborate with other research computing expertise at the Medical School as necessary
Participate in conference calls and data management meetings as needed
Perform other duties as required
Implement and adapt programs for microarray analysis, high-throughput sequencing data analysis, cis regulatory motif identification, and multi-genome protein motif searches.
Independently develop, implement and maintain custom designed computational solutions relevant for ongoing lab-based projects.
Independently develop, implement and maintain computational methods for meta-analysis of data generated in the lab as well as publicly available data.
Independently execute a scientific computational project (e.g. a project that can result in a first author publication)
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.
Participate 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.
Lead the design and implementation of reusable bioinformatics analysis pipelines for processing next-generation sequencing, microarray, genomics, proteomics and chemogenomics data. Ensure pipelines meet end-user needs and project timelines
Independently initiate and manage research collaborations. Work 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
Closely follow the latest development in high-through technologies, pioneer in bioinformatics analysis on novel datasets and facilitate sharing of knowledge and best practices
Independently develop novel algorithms and bioinformatics applications when existing software packages are not available or adequate
Prepare scientific manuscripts and abstracts including primary authorship of bioinformatics research papers
Organize bioinformatics training and workshops for analysis pipelines and in-house developed software applications
Liaison with Information System department to ensure high performance computing needs for research are properly addressed
Mentor rotation and summer internship students and junior members in the group