Amy Stephen
PHD Student at Center for Computational Biology, UC Berkeley
Boston, Massachusetts, United States
Summary
👤
Senior🎓
Top SchoolAmy Stephen is a computational biology PhD student with 14 years of experience blending mathematical modeling, machine learning, and genomic data analysis. Currently at UC Berkeley after undergraduate work at Carnegie Mellon, she has trained deep convolutional models on enhancer sequences across 130+ mammals and evaluated ATAC-seq quality across non-model organisms. She pairs rigorous applied and computational mathematics training with hands-on software work—building Python pipelines for large-scale genomic k-mer analysis and teaching imperative programming in C. Amy’s research intersects bioinformatics and data science, targeting questions like COVID-19 susceptibility through cross-species regulatory comparison. Beyond the lab, she’s led outreach and personalized campus tours, honing communication skills that make complex computational results accessible to diverse audiences. Notably, her experience spans both producing reproducible analysis pipelines and instructing students one-on-one, a rare combination for an early-career researcher.
14 years of coding experience
3 years of employment as a software developer
BS in Mathematical Sciences, Computational and Applied Mathematics, BS in Mathematical Sciences, Computational and Applied Mathematics at Carnegie Mellon UniversityHigh School Diploma, High School Diploma at Dover-Sherborn High School
Chinese, Spanish
Github Skills (28)
command-line-interface10
restful10
rest10
php8
interop8
handlers8
filesystem7
xcache7
joomla7
installer6
wincache6
apc6
composer5
memcached5
cms5
Programming languages (2)
Github contributions (5)
Molajo/Cache
Mar 2013 - Aug 2015
Contributions:91 commits, 4 pushes in 2 years 6 months
driversmemoryapcredisphp
Molajo/Filesystem
Jan 2013 - Apr 2014
Contributions:170 commits in 1 year 3 months
platform-independentphpindependentadaptersphp-platform
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