bioinformatics jobs in San Diego

This role supports neuroimaging research by performing manual image review and quality assurance on MRI data, conducting statistical analyses using MATLAB and Python, and maintaining data integrity across multiple acquisition sites. The analyst will design and implement data analysis tools, configure pipelines, write shell scripts and standard operating procedures, and troubleshoot data quality issues in coordination with partner institutions.…See more The position requires proficiency in Linux, shell scripting, MATLAB, and Python, along with hands-on experience analyzing structural and functional MRI neuroanatomic data and applying bioinformatics QC methods.

Automation QA Engineer for a genomics/bioinformatics project in San Diego. The role requires 3+ years of QA/test automation experience with Python, developing and maintaining automated test suites using pytest, unittest, or Robot Framework.…See more Responsibilities include functional, integration, and regression testing of genomics and sequencing software; validating NGS data and sample-to-result traceability; testing LIMS integrations and laboratory workflows; and collaborating with wet-lab and dry-lab teams to create real-world test scenarios. Knowledge of NGS, LIMS, bioinformatics, and life-sciences compliance is highly valuable.

Senior Bioinformatics Engineer responsible for designing, building, and operating production-grade, end-to-end bioinformatics pipelines that process and interpret large-scale genome cohorts. The role involves deep expertise in genome assembly, variant calling, structural-variant calling, haplotype phasing, and pangenome analysis, with the ability to select, adapt, and benchmark state-of-the-art algorithms.…See more Requires proficiency in Python and compiled languages (C++/Rust/Go), containerization (Docker/Singularity), workflow managers (Nextflow/Snakemake/WDL), and cloud environments (AWS/GCP). The position combines applied research—exploring AI approaches for biological insight—with continuous improvement of algorithms, code, and computational infrastructure, while mentoring junior staff in a startup environment.

This Bioinformatics Product Owner role focuses on defining and executing the product roadmap for NGS (next-generation sequencing) bioinformatics pipelines and supporting software in precision oncology. The role requires deep domain expertise in cancer genomics, NGS workflows (whole genome, exome, transcriptomics), and clinical genomics standards (FDA, CLIA, CAP, AMP), combined with product management skills to prioritize backlogs, lead Agile ceremonies, and coordinate across bioinformatics, engineering, clinical, and regulatory teams.…See more Key responsibilities include translating clinical and business needs into epics and user stories in JIRA, ensuring FDA compliance and computer system validation (CSV), and optimizing NGS pipeline performance. The ideal candidate brings proven product ownership experience in bioinformatics or oncology software, strong requirement-gathering abilities, and fluency in both technical NGS tools and regulatory frameworks.

The Data Scientist will support early-stage pharmaceutical programs by compiling, harmonizing, and ingesting omics datasets (RNA-Seq, DNA-Seq, scRNA-Seq, copy number) from multiple internal and external sources. The role requires developing automated scripts for dataset harmonization, loading formatted data into a proprietary interface, and performing quality control assessments.…See more The candidate must have strong coding skills in R and/or Python, bioinformatics experience, and a background working with NGS data.

Build and maintain computational pipelines for sequence analysis and genotyping in HPC and cloud environments, using tools like PLINK, GATK, and BEAGLE. Perform quality control on data inputs and outputs, document work meticulously, and develop new pipelines under supervision by selecting and testing computational approaches.…See more Requires expertise in Bash scripting, bioinformatics software, Linux, cloud platforms (AWS EC2, All of Us Research workbench), and programming languages (R, Python), plus strong written and verbal communication skills.

Develop and execute comprehensive automated test plans, test cases, and regression suites for genomics and bioinformatics software applications. Perform functional, integration, regression, and data-validation testing; validate application behavior against genomics concepts (sequencing data, variant calling, sample traceability); and collaborate with wet lab and dry lab teams to translate laboratory workflows into effective test scenarios.…See more Integrate automated tests into CI/CD pipelines, maintain test data, and partner with engineering and product teams on root-cause analysis and quality issue resolution. Requires 3+ years of QA/test automation experience, strong Python skills, hands-on knowledge of genomics fundamentals, and demonstrated experience testing LIMS platforms and life sciences software.

Senior Software Engineer responsible for designing, building, and maintaining secure, fault-tolerant distributed systems for sequencing data transfer, storage, and management. Contribute to CI/CD pipelines, evaluate component designs, collaborate across software teams, and drive innovation while troubleshooting complex customer issues.…See more Required expertise in C# and .NET/Core with 5+ years of software development experience; strong background in distributed systems patterns, testing frameworks, and quality practices essential.

The Bioinformatics Analyst prepares, maintains, and analyzes genomic, transcriptomic, metagenomic, and metatranscriptomic data from sequencing projects. Responsibilities include metagenomic assembly and annotation, statistical and comparative analysis, data mining, database curation, and applying machine learning and explainable AI methods for feature selection and classification.…See more The role works independently on complex tasks while collaborating with cross-functional scientific and technical teams, with potential for project leadership and mentoring as experience grows.