Nathan Johnson
Senior Bioinformatics Engineer
Upper Darby, Pennsylvania, United States
Summary
👤
Senior🎓
Top SchoolNathan Johnson is a Senior Bioinformatics Engineer with 11 years of experience building production-grade NGS pipelines, algorithmic solutions, and data-quality tools across biotech and clinical settings. He has delivered cloud-native, fully automated Nextflow workflows at Spark Therapeutics that scaled vector and plasmid characterization and produced interactive browser reports for non-technical users. At Illumina he applied machine learning and statistical modeling to sequencing problems, authored a Python package for QC across hundreds of genomes, and contributed to a genome segmentation model that led to a patent application. Nathan combines a Ph.D. in physics and hands-on lab troubleshooting to bridge instrument-level issues with software remediation, ensuring data integrity from sequencing through analysis. He also enjoys teaching programming and bioinformatics to non-programmers and pursues niche interests like applying neural networks to ancient cuneiform translation.
11 years of coding experience
16 years of employment as a software developer
University of California San DiegoBachelor's degree, Physics and Classical Studies, Bachelor's degree, Physics and Classical Studies at University of Pennsylvania
Github Skills (15)
estimate9
bioinformatics9
tsne9
purity8
drc7
sequencing7
docker7
neuroimaging5
python5
seq5
throughput5
rna-seq4
planetary3
nextflow3
pipeline3
Programming languages (5)
Github contributions (5)
NHJohnson/pep-scripts
Apr 2021 - Dec 2021
Helpful scripts for working with the Harvard / CfA Planetary Ephemeris Program
Contributions:2 PRs, 11 pushes, 4 branches in 8 months
pythonplanetaryephemerishelpfulcfa
NHJohnson/rosalind
Aug 2024 - Sep 2024
Contributions:8 pushes, 3 branches in 1 month
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