Data Processing Specialist - Thoracic Surgery

Site: The Brigham and Women's Hospital, Inc.

Mass General Brigham relies on a wide range of professionals, including doctors, nurses, business people, tech experts, researchers, and systems analysts to advance our mission. As a not-for-profit, we support patient care, research, teaching, and community service, striving to provide exceptional care. We believe that high-performing teams drive groundbreaking medical discoveries and invite all applicants to join us and experience what it means to be part of Mass General Brigham.

Job Summary

Responsible for acquiring data from primary or secondary data sources and maintaining databases/data systems. Also responsible for identifying, analyzing, and interpreting trends or patterns in complex data sets and cleaning data to correct problems.

Education
Bachelor's Degree Management Information Systems required or Bachelor's Degree Related Field of Study required Master's Degree Related Field of Study preferred

Can this role accept experience in lieu of a degree?
No

Experience
Data Analysis Experience 2-3 years required

Essential Functions (Key Roles & Responsibilities)

• Cloud storage and large transfers  (core for the migration)

• • Hands-on AWS S3: storage classes (Standard, Glacier, Deep Archive), restore requests and their timing, lifecycle rules, IAM credentials, AWS CLI or boto3.

• • Cost planning before moving data: storage, retrieval and egress fees
  • Bulk transfer tools: Globus, rclone, aws s3 sync, and FTPS/Aspera pulls from sequencing vendors; resumable, parallel transfers; bandwidth planning
  • Verification at scale: md5/sha256 manifests, file-count and byte reconciliation between source and destination, and a written sign-off before anything is deleted at the source.
• Cluster and storage administration

• • Slurm batch jobs and job arrays; shared filesystems (Lustre, GPFS, NFS), quotas, Unix groups and permissions.

• • Institutional research computing (MGB ERIS or similar): requesting storage, organising it into fast, bulk and archive tiers.
  • Archive hygiene: packing millions of small files into tar archives before archiving, and determining storage requirements
• Sequencing and lab data formats beyond FASTQ/BAM

• • CRAM and its dependence on the exact reference genome; VCF; long-read data (Oxford Nanopore POD5/FAST5, PacBio HiFi BAM).

• • Single-cell and spatial outputs (10x Genomics, Xenium bundles) and whole-slide images (SVS, NDPI, TIFF).
  • Vendor deliverables: sample sheets, QC reports, demultiplexing, and run, lane and library IDs.
• Sample database, biobank and compliance

• • REDCap (widely used at MGB) and/or a biobank LIMS such as OpenSpecimen or FreezerPro; barcoding, freezer inventory, chain of custody.

• • Data modelling of the chain patient → specimen/block → section/aliquot → library → sequencing run → file, with a data dictionary and controlled vocabularies.
  • Handling patient data: HIPAA, IRB protocols, coded (de-identified) sample IDs, access control, data use agreements and MGB data-security policy.
  • Public data submission: has deposited data in SRA, dbGaP, GEO or EGA for publications, or is willing to learn.
• Working practices

• • Git and re-runnable, logged scripts; clear READMEs and runbooks someone else can follow.

• • Running a multi-month migration: inventory first, agreed priorities, a tracking sheet, regular status updates.
  • Supporting wet-lab staff; working with sequencing vendors and cores.
• Performs other duties as assigned by PI
• Complies with all policies and standards as assigned by Research Manager

Onsite20 Shattuck Street0Per DiemDay (United States of America)

Pay Range

$17.71 - $24.28/Hourly

Grade

2At Mass General Brigham, we believe in recognizing and rewarding the unique value each team member brings to our organization. Our approach to determining base pay is comprehensive, and any offer extended will take into account your skills, relevant experience if applicable, education, certifications and other essential factors. The base pay information provided offers an estimate based on the minimum job qualifications; however, it does not encompass all elements contributing to your total compensation package. In addition to competitive base pay, we offer comprehensive benefits, career advancement opportunities, differentials, premiums and bonuses as applicable and recognition programs designed to celebrate your contributions and support your professional growth. We invite you to apply, and our Talent Acquisition team will provide an overview of your potential compensation and benefits package.2200 The Brigham and Women's Hospital, Inc. is an Equal Opportunity Employer. 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. To ensure reasonable accommodation for individuals protected by Section 503 of the Rehabilitation Act of 1973, the Vietnam Veteran’s Readjustment Act of 1974, and Title I of the Americans with Disabilities Act of 1990, applicants who require accommodation in the job application process may contact Human Resources at (857)-282-7642.

Mass General Brigham Competency Framework