Genomic Scientist- Pipeline Development

Boston Children's Hospital is hiring a Genomic Scientist for pipeline development and high-dimensional multi-omics analysis across pediatric rare disease initiatives. The role builds and maintains automated, reproducible bioinformatics workflows and collaborates with physician-scientists to analyze genomic data and support biological discovery.

Responsibilities

Pipeline Engineering & Workflow Automation: Design, build, optimize, and maintain scalable, reproducible bioinformatics pipelines and automated variant interpretation workflows for research and clinical-grade multi-omics data

Hypothesis-Driven Data Analysis: Deploy automated analytical workflows to execute rigorous exploratory and inferential data processing on high-dimensional genomic datasets using advanced statistics, machine learning, and quantitative modeling

HPC & Infrastructure Optimization: Containerize computational tools (Docker/Singularity), implement version control (Git), and optimize code performance for efficient execution across High-Performance Computing (HPC) clusters

Biological Discovery & Project Execution: Partner with physician-scientists to translate raw multi-omics data into biological insights, managing computational project milestones and troubleshooting pipeline bottlenecks with minimal supervision

Documentation & Scientific Communication: Thoroughly document computational pipelines and code bases, contribute to peer-reviewed scientific publications, and present analytical methods at internal and external research forums

Preferred

PhD in Genetics, Genomics, Computational Biology, Bioinformatics, or a related quantitative field

PhD

Genetics

Genomics

Computational Biology

Bioinformatics

Quantitative Research

Benefits

Flexible schedules

Affordable health, vision and dental insurance

Child care and student loan subsidies

Generous levels of time off

403(b) Retirement Savings plan

Pension

Tuition reimbursement

Certain License and Certification Reimbursement

Cell phone plan discounts

Discounted rates on T-passes

Company

Comprehensive pediatric health care and specialized hospital services

Boston, Massachusetts, USA

http://www.childrenshospital.org/

Founded in 1869

10001+ employees

Qualifications

Bachelor's degree

A minimum of one year of position-specific experience might potentially include experience acquired through MSc or Ph.D. studies

Demonstrated experience building, maintaining, and automating bioinformatics pipelines using workflow orchestration engines (e.g., Nextflow, WDL, Snakemake)

Strong programming proficiency in Python, R, and Bash in Linux/Unix High-Performance Computing (HPC) environments, including experience with containerization (Docker/Singularity) and version control (Git)

Computational experience analyzing multi-omic datasets (WGS/WES, RNA sequencing, methylation, or long-read platforms)

Experience with human genetics research, variant annotation tools, and familiarity with clinical NGS testing frameworks or ACMG interpretation guidelines in a research setting

Demonstrated ability to manage pipeline development tasks independently under general guidance, troubleshoot technical software issues, and collaborate effectively with multidisciplinary research teams

PhD in Genetics, Genomics, Computational Biology, Bioinformatics, or a related quantitative field

A minimum of one year of position-specific experience might potentially include experience acquired through MSc or Ph.D. studies.

Required skills

Represents the skills you have, click on the tags, Nextflow, WDL, Snakemake, Python, R, Bash, Linux/Unix HPC, Docker, Singularity, Git, Multi-omics Data Analysis, Human Genetics, Variant Annotation, Clinical NGS Testing, ACMG Interpretation Guidelines

Preferred skills

Multidisciplinary Collaboration

Experience

1+ years