Bioinformatician Analyst 40 Hours Days Bwh - Path Bioinformatics

Brigham and Womens Hospital is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race sex color religion national origin sexual orientation protected veteran status or on the basis of disability.

QUALIFICATIONS:

1.Minimum of 2 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.Bachelors degree in bioinformatics systems or computational biology computer science or equivalent required. Advanced degree preferred.

3.Proven strong programming skills and experience in algorithm development in both Windows and Linux environments.

SKILLS/ABILITIES/COMPETENCIES REQUIRED:

1.Excellent attention to detail

2.Excellent organizational and problem solving skills

3.Strong communication skills to be able to work effectively with multidisciplinary staff interacting with individuals at many levels of multiple institutions.

Bachelors or Masters degree in bioinformatics computer science statistics and/or the life sciences and 2 years relevant experience. Previous experience in molecular biology cancer genomics or a related field is required.

Experience in Java or Python is required

Working knowledge of OOD principles is preferred.

Prior experience in the detection annotation and prioritization/filtering of germline variants from NGS data is required.

Experience performing statistical analysis on large data sets including proficiency in R.

Excellent communication and effective problemsolving skills; and ability to interact with multidisciplinary staff in a fastpaced environment. The successful candidate should be able to work independently prioritize and manage a variety of tasks and shift priorities rapidly.

Prior experience developing software in a CLIA regulated environment is preferred

WORKING CONDITIONS:

Fast paced laboratory environment with large workload and frequent deadlines

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 Womens Hospital DanaFarber Cancer Institute and for the pediatric cancer patients of Boston Childrens 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 stateofthe art genomics technology to generate a detailed report of medically actionable genetic alterations in a CLIAcertified and realtime 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 Bioinformatician I will have demonstrated competency is one of more of the following areas of specialization: algorithm development data analysis quality assurance/testing pipeline software/computing development user interface design & report development webbased application development Laboratory Information Management System (LIMS) development or report development as described below.

PRINCIPAL DUTIES AND RESPONSIBILITIES:

Algorithm Development:

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.

Quality Assurance/ System Testing:

2.Analyze data quality and integrity of data output from existing algorithms as part of the complex multistep specimen tracking and reporting process across multiple systems and webbased interfaces

Data Analysis:

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 technologybased solutions or determine computational strategies.

Pipeline:

4.Design maintain and troubleshoot data processing/software pipelines and data architecture using various computational tools.

User Interface/Report Development:

5.Modify and develop new data visualization tools using datasets and webbased 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.

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.

7.Modify existing website content and develop new content and user tools

LIMS Maintenance & Development:

8.Maintain troubleshoot and modify existing webbased 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.

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.

General:

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.

BIOINFORMATICS ANALYST

The Bioinformatics Analyst will help develop maintain and refine the teams bioinformatics capabilities for genome research in cancer. This exciting opportunity will offer the candidate the chance to analyze data from both germline and cancer samples using a variety of NGS endpoints (DNAseq RNAseq etc). Additionally the candidate will perform integrated analysis of NGS data with orthogonal technologies (aCGH ddPCR etc). More specifically the candidate will work closely with the Center for Cancer Genome Discovery (CCGD) at DanaFarber Cancer Institute (DFCI) & Profile scientists to build out our capabilities for detection of prognostic or diagnostic germline variants in patients diagnosed or atrisk for various forms of cancer.

Additional duties may include but are not limited to:

Identify opportunities and develop innovative solutions for the analysis integration and representation of data from multiple NGS endpoints (DNAseq RNAseq etc).

Evaluation of external and internally developed tools for analyzing NGS data

Assist in the design and development of a data warehouse for tracking and storing clinical interpretations for germline variants

Provide direct technical and scientific support for CCGD & Profile investigators and staff