Bioinformatics software engineer and data scientist with an M.S. in Bioinformatics and Computational Biomedicine from OHSU. Experienced in working with cross-disciplinary teams to advance biomedical research by building scalable, high-performance software and interactive analysis tools. Skilled in method development, tool creation, reproducible workflow design, cloud infrastructure deployment, and modern data visualization frameworks.
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| Key Skills | ||
|---|---|---|
| Software Development | Python | Docker |
| Data Analysis & Visualization | R | Git |
| Technical Communication | SQL | AWS |
| Bioinformatics Pipelines | Nextflow | Terraform |
Work Experience
Jan 2024 – Aug 2025
Senior Scientific Software Engineer — Scale Biosciences Inc. — Remote
- Technical lead for single-cell RNA-seq and methylation data analysis workflows
- Developed automated testing and release workflows for reproducible pipelines and improved developer productivity
- Maintained and optimized AWS cloud infrastructure for scientific computing
Aug 2021 – Oct 2023
Data Scientist — NanoString Technologies Inc. — Remote
- Developed interactive visualization tool for large-scale image data using Python, napari, Dask, and Zarr
- Method development and implementation for a novel spatial multiomics platform leveraging tools in the R statistical ecosystem and SciPy stack
- Contributed to figures—including cover—and analysis for published manuscript on CosMx SMI technology
- Built R&D workflows on AWS using Jenkins, Terraform, and Docker
- Co-inventor, WO/2024/258979, “Method and system of multi-modal sub-cellular segmentation” (PCT published patent application, Dec 2024)
- Technical mentor to biologists and junior engineers
Feb 2021 – Jun 2021
Biostatistics Intern — NanoString Technologies Inc. — Remote
- Developed interactive visualization tool using R Shiny for exploring spatial transcriptomics data
- Contributed to development of new data analysis pipeline for technology access program
- Presented interactive visualization tool to senior leadership and customers
Jul 2020 – Sep 2020
Bioinformatics Scientist Intern — Providence Cancer Center — Portland, Oregon
- Bioinformatics analyses for cancer immunology research in collaboration with immunologist PI
- Analyzed tumor-infiltrating lymphocyte scRNA-seq data using Seurat
- Built interactive R Shiny applications for multiplex IHC and TCR-seq data analysis
Education
Sep 2019 – Jun 2021
Master of Science — Oregon Health & Science University — Portland, Oregon
- Major: Bioinformatics and computational biomedicine
- Related coursework: Statistics, Machine Learning, Bioinformatics Algorithms, Computational Genetics, Data Visualization
Sep 2018 – Jun 2019
Post-Baccalaureate — Portland State University — Portland, Oregon
- Major: Biology
- Related coursework: Genetics, Molecular Biology, Cell Biology, Virology, Cancer Biology
2016 – 2018
Massive Open Online Courses — edX.org — 2016–2018
- Related coursework: Chemistry, Biology, Differential Equations, Data Science
1998
Bachelor of Arts — Davidson College — Davidson, North Carolina
- Major: Economics
Additional Work Experience
2004 - 2014
Independent Software Developer — David Ross Software — Portland, Oregon
- Developer of Windows, Mac and iOS apps
- Created multiple apps for iOS platform including Uni Sudoku which was featured in the launch of the App Store for iPad
- Created the Knit Buddy iPhone app in partnership with Vogue Knitting
Aug 1998 - Jul 2002
Software Developer — American Management Systems — Fairfax, Virginia
- Developed market-leading financial management software sold to federal civilian agencies with up to 5000+ users
- Technical manager in charge of release-specific enhancements and responsible for improving software development processes from design stages through implementation
- C++ application server and Smalltalk GUI development
- Complex data manipulation with SQL on various relational database platforms
Publications
- He, S. et al. High-plex imaging of RNA and proteins at subcellular resolution in Rixed tissue by spatial molecular imaging. Nat Biotechnol 40, 1794–1806 (2022). doi:10.1038/s41587-022-01483-z.
- Duhen, R. et al. PD-1 and ICOS co-expression identiRies tumor-reactive CD4 T cells in human solid tumors. Journal of Clinical Investigation (2022) doi:10.1172/JCI156821.
- Rajamanickam, V. et al. Robust Antitumor Immunity in a Patient with Metastatic Colorectal Cancer Treated with Cytotoxic Regimens. Cancer Immunol Res (2021) doi:10.1158/2326-6066.CIR-20-1024.
- Danaher, P. et al. Insitutype: likelihood-based cell typing for single cell spatial transcriptomics. (2022) doi:10.1101/2022.10.19.512902.
- Kolar, G. R., Ross, D., Killingbeck, E. E., Samson, W. K. & Yosten, G. L. C. Spatial molecular imaging of the human type 2 diabetic islet. (2023) doi:10.1101/2023.01.04.519955.