The University of Pennsylvania is seeking a Bioinformatician to apply principles and methods of bioinformatics to assist scientists, principal investigators, and other laboratory team members, and to discuss study design with research teams and apply bioinformatics tools to visualize, analyze, manipulate, or interpret molecular data.
Requirements
- Genomics and data science expertise in Next‑Generation Sequencing analysis
- Advanced R workflows (tidyverse, stats, visualization) and scalable scripting in Python
- Experience with scVI for batch correction and label transfer
- Experience with MEME Suite or HOMER for regulatory genomics and motif analysis
- Experience with AWS Batch and object-storage patterns with Amazon S3
- Experience with containerized pipeline and environment development (Docker, Apptainer/Singularity) for HPC and cloud portability
- Experience with version-controlled project delivery in Git-based repositories
Responsibilities
- Genomics and data science expertise in Next‑Generation Sequencing analysis, from QC to modeling and interpretation
- Advanced R workflows (tidyverse, stats, visualization) and scalable scripting in Python for reproducible analysis
- Robust differential gene expression and pathway/functional enrichment (pseudobulk + single-cell designs)
- Single-cell and spatial omics integration and latent modeling with scVI for batch correction and label transfer
- Regulatory genomics and motif analysis using tools from MEME Suite or HOMER
- Cloud-native NGS workflow execution using AWS Batch and object-storage patterns with Amazon S3
- Handling of large genomics and multi-omics matrices (HDF5, loom, h5ad)
Other
- Bachelor of Science and 3 to 5 years of experience or equivalent combination of education and experience is required
- Strong verbal and written communication skills and developing leadership skills for working with multidisciplinary teams and with international colleagues
- Background checks may be required after a conditional job offer is made
- Consideration of the background check will be tailored to the requirements of the job
- Emerging leadership, mentorship, and multidisciplinary collaboration in international genomics research teams
