{"schemaVersion":"jobsearcher.job.v1","id":"d1fb1a47da1cd8643f5a41fa","url":"https://jobsearcher.com/jobs/d1fb1a47da1cd8643f5a41fa","canonicalUrl":"https://jobsearcher.com/jobs/d1fb1a47da1cd8643f5a41fa","title":"Bioinformatics Scientist (Omics Data/Python/SQL/HPC/Nextflow/Snakemake/PostgreSQL)","description":"Hybrid – Cambridge, MA\nThrough End of Year\nTop 3–5 Skills Needed:\nStrong programming and data engineering skills (Python, SQL, R)\nExperience with large-scale omics data management and integration\nKnowledge of metadata standards and ontologies for biological data\nExperience designing or maintaining bioinformatics data pipelines or repositories\nUnderstanding of data governance, permissions, and FAIR data principles\nJob Description:\nWe are seeking a highly motivated Data Scientist to design and implement an internal GEO-like system for managing the Immune Discovery omics data assets.\nThe successful candidate will build a centralized platform that integrates raw, processed, and metadata layers of multi-omics datasets (e.g., bulk and single-cell RNA-seq, spatial omics, CyTOF) and ensures that they are findable, accessible, well-documented, and permission-controlled.\nThis role bridges bioinformatics, data engineering, and data governance, enabling researchers to efficiently submit, query, and reuse internal datasets while maintaining data quality and compliance.\nKey Responsibilities:\nDesign and implement scalable pipelines for ingestion, curation, and storage of raw and processed omics data.\nBuild and maintain a searchable data catalog or portal to enable dataset discovery and visualization of metadata and QC metrics.\nImplement access controls and permission management systems to ensure appropriate data security and compliance.\nWork closely with Immunology Discovery, and IR teams to integrate the system with existing compute and storage infrastructure.\nDevelop and enforce metadata standards, ontologies, and schema to ensure consistency and interoperability across studies.\nImpact:\nBy developing this internal data platform, the candidate will transform how omics data are organized and shared across client.\nThe system will improve data visibility and reuse, enhance reproducibility, and accelerate scientific insights by enabling streamlined access to all relevant data layers, raw, processed, and annotated.\nQualifications:\nBS (5+ years) or MS (0–3 years) in Bioinformatics, Computational Biology, Data Science, Computer Science, or related field.\nProficiency in Python and SQL, with experience in data wrangling, ETL pipelines, and automation.\nHands-on experience managing large omics datasets.\nStrong understanding of metadata models, data provenance, and FAIR data principles.\nExcellent communication skills and ability to collaborate with cross-functional teams.\nPreferred Technical Skills:\nExperience with cloud storage or compute environments (AWS, GCP, or on-prem HPC).\nExperience with workflow orchestration tools (Nextflow, Snakemake).\nFamiliarity with relational and NoSQL databases (PostgreSQL).\nFamiliarity with public repositories such as GEO, or SRA and their metadata standards.\nProficiency with Git for version control and collaboration.\nAdditional Technical Skills (a plus):\nExperience with containerization (Docker/Singularity) and CI/CD workflows.\nUnderstanding of web application frameworks or dashboarding tools for data portals.\nExposure to single-cell or multi-omics integration workflows.\nExperience implementing data access and permission systems integrated with organizational identity management.\nJob Type: Contract\nPay: $88.00 - $90.00 per hour\nExpected hours: 40 per week\nBenefits:\nHealth insurance\nEducation:\nBachelor's (Preferred)\nExperience:\nNextflow: 5 years (Preferred)\nSnakemake: 5 years (Preferred)\nNoSQL databases (PostgreSQL).: 5 years (Preferred)\ndata wrangling, ETL pipelines, and automation.: 4 years (Preferred)\nmanaging large omics datasets.: 5 years (Preferred)\nPython: 5 years (Preferred)\nSQL: 5 years (Preferred)\nR Programming: 5 years (Preferred)\nAbility to Commute:\nCambridge, MA 02139 (Preferred)\nWork Location: In person","company":"Systemsally","rawCompany":"systemsally","city":"Somerville","state":"MA","isRemote":false,"isActive":false,"createdAt":"2026-04-14T10:21:19.484Z","occupations":[{"code":"15-2099.01","title":"Bioinformatics Technicians","slug":"bioinformatics-technicians"},{"code":"19-1029.01","title":"Bioinformatics Scientists","slug":"bioinformatics-scientists"},{"code":"15-1243.01","title":"Data Warehousing Specialists","slug":"data-warehousing-specialists"}],"industries":[{"code":"541714","title":"Research and Development in Biotechnology (except Nanobiotechnology)","slug":"research-and-development-in-biotechnology-except-nanobiotechnology"},{"code":"541512","title":"Computer Systems Design Services","slug":"computer-systems-design-services"},{"code":"541715","title":"Research and Development in the Physical, Engineering, and Life Sciences (except Nanotechnology and Biotechnology)","slug":"research-and-development-in-the-physical-engineering-and-life-sciences-except-nanotechnology-and-biotechnology"}],"jobPosting":{"@context":"https://schema.org","@type":"JobPosting","title":"Bioinformatics Scientist (Omics Data/Python/SQL/HPC/Nextflow/Snakemake/PostgreSQL)","description":"Hybrid – Cambridge, MA\nThrough End of Year\nTop 3–5 Skills Needed:\nStrong programming and data engineering skills (Python, SQL, R)\nExperience with large-scale omics data management and integration\nKnowledge of metadata standards and ontologies for biological data\nExperience designing or maintaining bioinformatics data pipelines or repositories\nUnderstanding of data governance, permissions, and FAIR data principles\nJob Description:\nWe are seeking a highly motivated Data Scientist to design and implement an internal GEO-like system for managing the Immune Discovery omics data assets.\nThe successful candidate will build a centralized platform that integrates raw, processed, and metadata layers of multi-omics datasets (e.g., bulk and single-cell RNA-seq, spatial omics, CyTOF) and ensures that they are findable, accessible, well-documented, and permission-controlled.\nThis role bridges bioinformatics, data engineering, and data governance, enabling researchers to efficiently submit, query, and reuse internal datasets while maintaining data quality and compliance.\nKey Responsibilities:\nDesign and implement scalable pipelines for ingestion, curation, and storage of raw and processed omics data.\nBuild and maintain a searchable data catalog or portal to enable dataset discovery and visualization of metadata and QC metrics.\nImplement access controls and permission management systems to ensure appropriate data security and compliance.\nWork closely with Immunology Discovery, and IR teams to integrate the system with existing compute and storage infrastructure.\nDevelop and enforce metadata standards, ontologies, and schema to ensure consistency and interoperability across studies.\nImpact:\nBy developing this internal data platform, the candidate will transform how omics data are organized and shared across client.\nThe system will improve data visibility and reuse, enhance reproducibility, and accelerate scientific insights by enabling streamlined access to all relevant data layers, raw, processed, and annotated.\nQualifications:\nBS (5+ years) or MS (0–3 years) in Bioinformatics, Computational Biology, Data Science, Computer Science, or related field.\nProficiency in Python and SQL, with experience in data wrangling, ETL pipelines, and automation.\nHands-on experience managing large omics datasets.\nStrong understanding of metadata models, data provenance, and FAIR data principles.\nExcellent communication skills and ability to collaborate with cross-functional teams.\nPreferred Technical Skills:\nExperience with cloud storage or compute environments (AWS, GCP, or on-prem HPC).\nExperience with workflow orchestration tools (Nextflow, Snakemake).\nFamiliarity with relational and NoSQL databases (PostgreSQL).\nFamiliarity with public repositories such as GEO, or SRA and their metadata standards.\nProficiency with Git for version control and collaboration.\nAdditional Technical Skills (a plus):\nExperience with containerization (Docker/Singularity) and CI/CD workflows.\nUnderstanding of web application frameworks or dashboarding tools for data portals.\nExposure to single-cell or multi-omics integration workflows.\nExperience implementing data access and permission systems integrated with organizational identity management.\nJob Type: Contract\nPay: $88.00 - $90.00 per hour\nExpected hours: 40 per week\nBenefits:\nHealth insurance\nEducation:\nBachelor's (Preferred)\nExperience:\nNextflow: 5 years (Preferred)\nSnakemake: 5 years (Preferred)\nNoSQL databases (PostgreSQL).: 5 years (Preferred)\ndata wrangling, ETL pipelines, and automation.: 4 years (Preferred)\nmanaging large omics datasets.: 5 years (Preferred)\nPython: 5 years (Preferred)\nSQL: 5 years (Preferred)\nR Programming: 5 years (Preferred)\nAbility to Commute:\nCambridge, MA 02139 (Preferred)\nWork Location: In person","datePosted":"2026-04-14T10:21:19.484Z","dateModified":"2026-04-14T10:21:19.484Z","hiringOrganization":{"@type":"Organization","name":"Systemsally","sameAs":"https://jobsearcher.com"},"jobLocation":{"@type":"Place","address":{"@type":"PostalAddress","addressLocality":"Somerville","addressRegion":"MA","addressCountry":"US"}},"identifier":{"@type":"PropertyValue","name":"JobSearcher","value":"d1fb1a47da1cd8643f5a41fa"},"url":"https://jobsearcher.com/jobs/d1fb1a47da1cd8643f5a41fa"}}