Immunology Informatics Research Associate

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

Job summary

The USC Mann School of Pharmacy and Pharmaceutical Sciences seeks a Research Associate, Computational Immunology, to develop advanced computational methods for immune-focused genomic and multi-omics analyses. You will lead scalable pipelines, create robust software tools, and interpret large datasets with clinical partners, contributing to high-impact manuscripts and grant proposals.

Responsibilities include designing tools for repertoire inference, performing differential analyses, and

Qualifications

• MS degree in Computational Biology, Bioinformatics, Genomics, Computer Science, Biostatistics, or a related discipline plus three years of relevant experience performing computational genomics/immunogenomics analyses and tool development; OR
• Ph.D. in Computational Genomics, Computational Immunology, Computational Biology, Bioinformatics, Biostatistics, Computer Science, or a closely related field.

Responsibilities

• Design, develop, test, and maintain computational tools for genomic and immunogenomic analyses (e.g., repertoire inference, clonotype tracking, antigen-receptor diversity metrics, cell-state modeling, and immune microenvironment profiling).
• Build and maintain reproducible, 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, repertoire sequencing, proteomics/metabolomics), including quality control, normalization, batch correction, and statistical modeling.
• Develop and manage analysis-ready databases and metadata frameworks; implement governance and documentation standards to ensure data integrity and reuse.

Skills

Python

R

Statistics

HPC/Linux

Documentation

Education

MS in Computational Biology, Bioinformatics, Genomics, Computer Science, Biostatistics, or related discipline

Ph.D. in Computational Genomics, Computational Immunology, Computational Biology, Bioinformatics, Biostatistics, Computer Science, or related field

Tools

Docker

Singularity

SLURM

Job description

The USC Mann School of Pharmacy and Pharmaceutical Sciences seeks a Research Associate, Computational Immunology, to develop advanced computational methods for immune-focused genomic and multi-omics analyses. You will lead scalable pipelines, create robust software tools, and interpret large datasets with clinical partners, contributing to high-impact manuscripts and grant proposals.

Responsibilities include designing tools for repertoire inference, performing differential analyses, and