Immunogenomics Research Associate - Multi-Omics & Pipelines

University of Southern California; Los Angeles (CA); On-site; USD 71,000 - 89,000; Full time

Job summary

USC Mann School of Pharmacy and Pharmaceutical Sciences in Los Angeles seeks a Research Associate, Computational Immunology, to develop scalable computational methods for immune-focused genomic and multi-omics analyses and to translate findings into biological hypotheses and high-impact manuscripts.

The role leads design of analysis pipelines, builds robust software tools, and collaborates with experimental and clinical teams to drive integrative insights and grant-ready projects.

Qualifications

• MS degree plus three years of relevant experience in computational genomics/immunogenomics analyses and tool development.
• PhD in related field preferred.

Responsibilities

• Design, develop, test, and maintain computational tools for genomic and immunogenomic analyses.
• Build modular pipelines for high-throughput analyses using best practices in software engineering and scientific computing.
• Analyze and integrate large datasets across modalities (bulk RNA-seq, scRNA-seq, scATAC-seq, proteomics/metabolomics).
• Perform differential analysis, pathway enrichment, deconvolution/cell composition inference, and longitudinal analyses.
• Develop and manage analysis-ready databases and metadata frameworks; ensure data governance and documentation.
• Optimize workflows for HPC/cloud environments and scalable storage/compute strategies.
• Collaborate with wet-lab and clinical investigators to translate computational results into hypotheses and experiments.
• Prepare figures, reports, and reproducible notebooks; contribute to manuscripts and grant proposals.

Skills

Python

R

HPC/Linux

Docker & Singularity

SLURM

Documentation

Publishable analyses

Education

MS in Computational Biology / Bioinformatics

PhD in Computational Genomics / Immunology

Tools

Docker

Singularity

SLURM

Job description

USC Mann School of Pharmacy and Pharmaceutical Sciences in Los Angeles seeks a Research Associate, Computational Immunology, to develop scalable computational methods for immune-focused genomic and multi-omics analyses and to translate findings into biological hypotheses and high-impact manuscripts.

The role leads design of analysis pipelines, builds robust software tools, and collaborates with experimental and clinical teams to drive integrative insights and grant-ready projects.