Sr. Research Systems Analyst DOM Channing

1 week ago

Boston, United States Brigham & Women's Hospital(BWH) Full time
The Channing Division of Network Medicine at Brigham and Women's Hospital, Boston are looking for exceptional candidates to join the Bioinformatics Core. The core work involves a wide variety of data management challenges of complex data sets, including genomic scale next-generation sequencing data, methylation, metabolomics, and proteomics. Projects involve interrogation of the genome, transcriptome, and epigenome as well as the proteome and metabolome utilizing machine learning analysis tools and data analysis pipelines running on the computational cluster and public cloud. The workflows are integrated with the software development life cycle and implement data operations best practices.

The Sr. Research Systems Analyst will develop and support RECOVER System Bio OMIC Data QC needs and complex bioinformatics infrastructure needed for the review, analysis and distribution of this complex data outputs. Transformation and analysis requirements that will integrate across a wide range of skills and techniques. The Sr. Research Systems Analyst is required to design, create, support applications and software analysis pipelines and secure dissemination of information generated.

Qualifications

PRINCIPAL DUTIES AND RESPONSIBILITIES:

  • Mentor junior bioinformaticians in assuming workflow development and application development responsibilities.
  • Educate division wide RECOVER Team members through training materials and individual support. Meet with people individually to troubleshoot Bioinformatics and Data Analysis problems as well as to review coding best practicev
  • Collaborate with other staff on developing workflow and system requirements.
  • Build and maintain the laboratory's datasets by identifying structural and specific solutions. Evaluate requirements, prepare architecture documents, and implement those designs.
  • Develop and organize cloud systems. Respond to technical issues regarding the cloud. Offer guidance in infrastructure development in the cloud.
  • Prepare detailed quality control report workflows for evaluation by principal investigators and other staff members. Perform complete data validation and error detection; ensuring data security, integrity measures are met.
  • Discuss with researchers to discuss results, analysis direction prior to project.
  • To work closely with genetic epidemiologists and biological laboratories to design, implement, administer and support solutions to cutting edge problems in the creation and interpretation of NGS data creation.
  • Maintaining an active role in research of the current trends in NGS analysis methods, programming algorithms and using new technologies to prototype future developments
  • Contribute in the preparation of scientific methods for manuscripts detailing methods and design; Presentations of results or new tools at RECOVER System Bio sessions for the department.
  • Performs all other duties/responsibilities as directed.
QUALIFICATIONS:

PhD in Computer Science, Mathematics, or a biological science recommended. Applicants will have 5+ years of programming experience developing software solutions for computational, biological or engineering problems. Understanding of agile development methods preferred.

SKILLS/ ABILITIES/ COMPETENCIES REQUIRED:
  • Experience programming in R, Python or Java focusing on computational biological applications.
  • Experience with workflow languages like snakemake, nextflow, WDL or CWL.
  • Understanding the use of bioinformatics tools including common NGS tools [plink, BWA, samtools, GATK]
  • Experience with common bioinformatics and genomic browsers [NCBI, Genbank, UCSC]Ability to apply statistical and machine learning techniques to solve 'big data' problems.
  • Experience or certification in cloud architecture; experience with HPC systems such as SGE, Slurm; experience with container technologies such as docker or kubernetes
  • Experience managing a collaborative github repository: creating issues, merging pull requests, integrating code from multiple team membersExperience with "full-stack development" a plus, including code development; continuous integration; testing; packaging; deployment
  • Ability to work in a highly collaborative and intellectually challenging environment.
  • Must work independently.
  • Excellent oral and written communication skills.


EEO Statement

BWH is an Affirmative Action Employer. By embracing diverse skills, perspectives and ideas, we choose to lead. All qualified applicants will receive consideration for employment without regard to race, color, religious creed, national origin, sex, age, gender identity, disability, sexual orientation, military service, genetic information, and/or other status protected under law. We will ensure that all individuals with a disability are provided a reasonable accommodation to participate in the job application or interview process, to perform essential job functions, and to receive other benefits and privileges of employment.

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