Research Instructor

University of Colorado Anschutz Department:
Ophthalmology

Job Title:

Research Instructor Position # - Requisition #41021 Job Summary

This Lead Bioinformatician will provide scientific and technical analysis for a growing translational biorepository focused on identifying biomarkers of disease subtype and treatment response. The position will lead the development and implementation of reproducible analytical workflows integrating high-dimensional immunologic, proteomic, genomic, and clinical datasets.

Initial work will be heavily focused on the biorepository's multi-omic data, including PhIP-Seq, high-dimensional cytometry, plasma proteomics, clinical phenotypes, and integration with whole-genome sequencing results generated by collaborating analysts. This role will help shape the analytical scope and long-term data strategy of the biorepository, establish reusable data and computational infrastructure, and support its continued growth in size and scientific scope.

The position will also support additional collaborative projects involving single-cell RNA sequencing, spatial transcriptomics, and other emerging multi-omic technologies. The successful candidate will work closely with clinical investigators, laboratory scientists, statisticians, geneticists, and other computational collaborators to define research questions, develop analysis plans, interpret biological findings, and communicate results. The position will provide technical leadership, code review, training, and mentorship to approximately one to three analysts or trainees.

• Lead analysis and integration of PhIP-Seq, CYTOF, affinity-based and mass-spectrometry proteomics, clinical data, and externally analyzed WGS results.
• Develop analysis plans addressing biomarkers of disease subtype, prognosis, and treatment response.
• Apply and evaluate multi-omic methods including CCA, MOFA and related latent-factor models, WGCNA, pseudo bulk analysis, cell-state and cell-cell communication analysis, and predictive modeling.
• Lead secondary projects involving single-cell RNA sequencing and spatial transcriptomics.
• Perform raw-data processing, quality assessment, normalization, statistical analysis, biological interpretation, and visualization.
• Work with investigators to refine research questions, assess feasibility, select appropriate methods, estimate timelines, and communicate analytical limitations.
• Prepare publication-quality figures and contribute to manuscripts, abstracts, presentations, and grant applications.
• Serve as a coauthor on collaborative work, with opportunities to lead analytically focused manuscripts.

• Design a reusable analytical and data infrastructure that supports continued expansion of the biorepository.
• Develop, validate, document, and maintain reproducible computational pipelines using workflow-management systems
• Work in high-performance computing and cloud-computing environments.
• Develop and maintain data dictionaries, metadata standards, sample identifiers, provenance records, analysis documentation, and quality-control procedures.
• Harmonize clinical, laboratory, and multi-omic datasets across projects and collection periods.
• Establish standards for code quality, versioning, documentation, archiving, and reproducible reporting.

• Provide technical guidance, code review, training, and mentorship to one to three junior analysts, trainees, or research staff.
• Teach best practices in bioinformatics, statistical analysis, reproducible research, data management, and scientific visualization.
• Promote consistent analytical standards across projects.
• Participate in project meetings…