BIOINFORMATICIAN II / 40 HOURS / DAY / BWH - PATHOLOGY
GENERAL SUMMARY/OVERVIEW STATEMENT:
The Center for Advanced Molecular Diagnostics (CAMD) is the clinical molecular diagnostics laboratory for three Harvard Medical School hospitals: Brigham and Women's Hospital, Dana-Farber Cancer Institute, and for the pediatric cancer patients of Boston Children's Hospital. Our mission is to provide innovative molecular and cytogenetic diagnostic services to assist with the clinical care of patients in our hospitals and affiliated clinics, with a primary focus on cancer care. This is exemplified by the PROFILE program, which is a collaborative effort to advance translational and personalized cancer medicine by implementing tumor genomic profiling for all cancer patients who receive care at one of the collaborating hospitals. PROFILE employs state-of-the art genomics technology to generate a detailed report of medically actionable genetic alterations in a CLIA-certified and real-time process to facilitate rapid clinical application. These cancer genomic profiles are being used to guide patient treatment and/or stratification for clinical trials of novel anticancer agents.
Working under very general supervision, the Computational Bioinformatican II will have demonstrated independent design and innovation in one or more of the following areas of specialization: algorithm development, data analysis, quality assurance/testing, pipeline software/computing development, user interface design & report development, web-based application development, Laboratory Information Management System (LIMS) development, or report development, as described below.
PRINCIPAL DUTIES AND RESPONSIBILITIES:
1.Design and apply bioinformatics algorithms using tumor sequencing data, building data models and databases using various software and statistical tools to aid in the analysis and interpretation of genetic data. Work on designing algorithms for next-generation technologies or for an expansion into new genetic testing areas (e.g. germline genetics, RNA-Seq), using new and innovative approaches and tools.
Quality Assurance/ System Testing:
2.Analyze data quality and integrity of data output from existing algorithms as part of the complex, multi-step specimen tracking and reporting process, across multiple systems and web-based interfaces. Develop new and innovative tools to enhance quality assurance review and to improve assay and system performance.
3.Analyze large molecular datasets of tumor sequencing data to help critically review and analyze the results of specimen testing, working closely with faculty and staff to troubleshoot problems, recommend technology-based solutions, or determine computational strategies. Develop and validate new data analysis software tools to enhance ability of faculty to interpret genetic data output.
4.Design, maintain, and troubleshoot data processing/software pipelines and data architecture, using various computational tools. Working with next-generation technologies & new information system platforms, design new data sets, data formats, or data processing pipelines to improve system performance.
User Interface/Report Development:
5.Modify and develop new data visualization tools using datasets and web-based bioinformatics tools, with emphasis on integrating various data types, identifying opportunities and needs for innovative solutions for the analysis and management of biological data in relevant databases. Independently develop new data visualization tools for faculty which enhances the ability to effectively interpret genetic data output.
6.Collaborate with other PROFILE IS group staff and Center leadership on the development of software and custom scripts to automate data retrieval, improve user interfaces, create new statistical tools and reports, etc.. Independently design new tools to improve operations of PROFILE group.
7.Modify existing website content and develop new content and user tools. Independently re-design website, working closely with PROFILE leadership on general content inclusion, and implement.
LIMS Maintenance & Development:
8.Maintain, troubleshoot, and modify existing web-based Laboratory Information Management System (LIMS), which is a locally developed application that tracks specimens throughout the sequencing and data analysis process, involving complex instrument/software interfaces. Work with PROFILE leadership & Senior Computational Bioinformaticist to identify, test, validate, and implement a new commercial LIMS system.
9.Manage interfaces between LIMS and other clinical software systems which use LIMS data. The major example is PowerPath which is the software platform through which interpretative case reports are generated and released to clinicians and investigators. Serve as content expert on interface development/management, leading efforts to revise, modify, or re-build interfaces.
10.Work with CAMD/PROFILE leadership on other research collaborations for DFCI/BWH or outside investigators
11.Collaborate with other faculty and staff on the communication of research results through conference presentations, scientific publications, or project reports.
12.Provide direct technical and scientific customer support for Profile investigators and staff.
13.Train technical and other staff on new applications, processes, hardware, etc.
14.Performs all other duties and responsibilities as directed
1.5 years of relevant experience in bioinformatics, computational biology, or programming/analysis, working in a research and/or clinical environment, working with large research datasets. Experience working in a large cancer genetics research or clinical program highly desirable.
2.2 years of demonstrated competency, innovation, and independence in one or more area of specialization/focus in the Computational Bioinformatics group.
3.Bachelor's degree in bioinformatics, systems or computational biology, computer science, or equivalent required. Advanced degree preferred.
4.Proven strong programming skills and experience in algorithm development in both Windows and Linux environments.
1.Excellent attention to detail
2.Ability to work independently, self-motivated
3.Demonstrated ability to innovate
4.Excellent organizational and problem solving skills
5.Strong communication skills to be able to work effectively with multidisciplinary staff, interacting with individuals at many levels of multiple institutions.
Fast paced laboratory environment with large workload and frequent deadlines.
Brigham and Womens Hospital is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, creed, sex, sexual orientation, gender identity, national origin, ancestry, age, veteran status, disability unrelated to job requirements, genetic information, military service, or other protected status.
Brigham and Womens Hospital I CARE Standards
The I CARE Standards guide me in my interactions with patients, family members, visitors, colleagues, and neighbors in my workplace and surrounding community to optimize the Brigham experience and help fulfill my role in our mission of providing seamless, high quality patient and family centered care.
C.I will Communicate my commitment to high quality performance
A.I will Appear and act as a professional
R.I will Respect all individuals
E.I will Extend myself