Stanford University

Cary Academy

PhD Student in Bioinformatics and Systems Biology at UCSD at University of California San Diego  -  Science Writer and Illustrator at EpiGenie

San Diego County, California, United States

EpiGenie, LLC

Technical Writer and Illustrator

Jointly mentored by Gene Yeo and Chris Glass, studying translational regulation in the context of disease and inflammation.
-  2021 NSF Graduate Research Fellowship Program Awardee

University of California San Diego

PhD Student in Bioinformatics and Systems Biology at UCSD

- Co-authored Genome Medicine review article describing biomarkers for response to immunotherapy

-  Developed bioinformatics software and cloud-based bioinformatics pipelines for whole exome, genome, and transcriptome analysis, both human and non-human, germline and somatic

-  Developed pipelines for WGS analysis of germ cell tumors in
Built automated pipeline for cloud storage of dbGaP genomic data

-  Built Python version of DeconstructSigs to deconstruct somatic mutational signatures
Developed submission portal for our lab’s clinical interpretation platform

Tech stack: Python, Pandas, Jupyter notebooks, Linux environment, bash scripting, samtools, bwa, SRA Toolkit, Google Cloud platform, Google BigQuery, WDL pipelining language, IGV, GATK suite, docker, Terra (formerly FireCloud) javascript, Flask

Dana-Farber Cancer Institute

Associate Computational Biologist

- Web application feature design and development
-  API design, development and documentation
-  Reference data incorporation
-  Customer LIMS and country project integrations design and development, including Genomics England case analysis pipeline ownership
-  Custom clinical reporting system design
-  React, Pyramid, SQLAlchemy, MySQL full-stack engineering

Fabric Genomics

Software Engineer

- Services and APIs team
-  Enhanced and deployed a RESTful internal data service in Java

Opower

Software Engineering Intern

- Managed house's funds using QuickBooks
-  Worked with house chef to establish weekly budgets
-  Paid food vendors and reimbursed resident payments in a timely manner
-  Wrote grant applications
-  Collaborated with a team of staff members to organize house events and trips

House Financial Manager

Submitted weekly original cartoons for publication

The Stanford Daily Newspaper

Cartoonist

- Automated monthly risk metrics compilation, increasing efficiency six-fold
-  Conducted analysis on the relationship between day of week, time of day, and risk metrics
-  Conducted industry analysis benchmarking how risk is handled in various Google products
-  Researched address verification and classification APIs for use in internal tools

Tools used: Python, Bash, SQL, Google Spreadsheets API

Google

Wallet Risk Operations BOLD Intern

- Developed a basic surgical simulation using Unity and the Phantom Omni
-  Assessed the Unity game engine’s potential as a platform for surgical simulation design
-  Developed a rudimentary head-tracking system for a surgery simulation
-  Developed plugins for haptic interaction with the simulator
-  Created 3D virtual environments and reflection maps for haptic interaction studies

Tools Used: Unity, Autodesk Maya, C++, Phantom Omni and Razr Hydra haptic devices

Salisbury Robotics Lab

Surgical Simulation Research Assistant

- Wrote technical articles for Biogen Idec’s internal IT Knowledgebase
- Standardized databases to facilitate migrations to cloud-based system
- Analyzed help-request queue statistics to highlight volume trends

Biogen Idec

Intern in Commercial IT Innovations

- Drew up to 4 graphics a week for Stanford's daily newspaper

Graphics Artist

RTI International

Intern, Office of Innovation and Commercialization

- Screened patients in Spanish and English for treatment eligibility at the free clinic
-  Interpreted between Spanish-speaking patients and the Clinic's doctors and administrators
-  Designed and implemented a health information video system for the clinic's waiting room

Eric Kofman