Bioinformatics Specialist I at Partner's Healthcare in Boston, Massachusetts

Job Description:

Site: The General Hospital Corporation


At Mass General Brigham, we know it takes a surprising range of talented professionals to advance our mission-from doctors, nurses, business people and tech experts, to dedicated researchers and systems analysts. As a not-for-profit organization, Mass General Brigham is committed to supporting patient care, research, teaching, and service to the community. We place great value on being a diverse, equitable and inclusive organization as we aim to reflect the diversity of the patients we serve.


At Mass General Brigham, we believe a diverse set of backgrounds and lived experiences makes us stronger by challenging our assumptions with new perspectives that can drive revolutionary discoveries in medical innovations in research and patient care. Therefore, we invite and welcome applicants from traditionally underrepresented groups in healthcare - people of color, people with disabilities, LGBTQ community, and/or gender expansive, first and second-generation immigrants, veterans, and people from different socioeconomic backgrounds - to apply.


The Iafrate Laborataory in the MGH Molecular Pathology Unit is seeking a highly motivated Bioinformatics Specialist to join our research team. This position will focus on high-dimensional image analysis using Lunaphore, genomic and transcriptomic data analysis, and data management/husbandry. The successful candidate will work closely with biologists, computational scientists, and clinicians to extract meaningful insights from multimodal datasets.



Job Summary
We are seeking a highly motivated Bioinformatics Specialist to join our research team. This position will focus on high-dimensional image analysis using Lunaphore, genomic and transcriptomic data analysis, and data management/husbandry. The successful candidate will work closely with biologists, computational scientists, and clinicians to extract meaningful insights from multimodal datasets.



Qualifications



Key Responsibilities




1. Lunaphore Image Analysis & Spatial Biology

• Develop and implement workflows for Lunaphore COMET multiplexed immunofluorescence image analysis.


• Process and analyze high-dimensional imaging datasets using QuPath, ImageJ, Cellpose, and other computational tools.


• Integrate spatial biology data with transcriptomic/genomic data for multimodal analysis.

2. Genomic & Transcriptomic Data Analysis

• Perform bulk RNA-seq, single-cell RNA-seq (scRNA-seq), and spatial transcriptomics data analysis.


• Conduct Next-Generation Sequencing (NGS) analysis, including variant calling, gene expression analysis, and pathway enrichment studies.


• Utilize bioinformatics pipelines (e.g., STAR, Cell Ranger, Seurat, DESeq2, Monocle, Scanpy) for data processing and interpretation.


• Work with long-read sequencing (PacBio, Oxford Nanopore) and epigenomics as needed.

3. Data Management & Computational Infrastructure

• Develop and maintain data pipelines for large-scale imaging and sequencing datasets.


• Manage data storage, versioning, and retrieval in compliance with FAIR data principles.


• Maintain documentation and reproducible workflows using Snakemake, Nextflow, or WDL.

Required Skills & Qualifications

• 
  PhD (or MSc with equivalent experience) in Bioinformatics, Computational Biology, Biostatistics, or related field.


• Strong proficiency in Python, R, and Bash scripting.


• Experience with spatial biology tools (e.g., QuPath, Cellpose, Napari, Halo, or Fiji/ImageJ).


• Expertise in NGS data processing and analysis, including RNA-seq, scRNA-seq, and variant analysis.


• Familiarity with machine learning / AI for image and genomic data analysis.


• Experience working in Unix/Linux environments and using HPC/cloud-based pipelines.


• Strong organizational skills for handling large and complex datasets.


• Ability to collaborate effectively in a multidisciplinary research team.

***PLEASE READ THE REQUIREMENTS THOROUGHLY AND ONLY APPLY IF YOU QUALIFY***




Additional Job Details (if applicable)



Remote Type


Hybrid



Work Location


149 Thirteenth Street Building 149



Scheduled Weekly Hours


40



Employee Type


Regular



Work Shift


Day (United States of America)



EEO Statement:


The General Hospital Corporation 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.



Mass General Brigham Competency Framework


At Mass General Brigham, our competency framework defines what effective leadership "looks like" by specifying which behaviors are most critical for successful performance at each job level. The framework is comprised of ten competencies (half People-Focused, half Performance-Focused) and are defined by observable and measurable skills and behaviors that contribute to workplace effectiveness and career success. These competencies are used to evaluate performance, make hiring decisions, identify development needs, mobilize employees across our system, and establish a strong talent pipeline. Apply Now