Research

My research sits between the bench and the pipeline — running Illumina sequencers and single-cell workflows on one side, and building the Nextflow and HPC infrastructure that turns those reads into biology on the other. Below is a fuller picture of the labs I've worked in and the tools and models I've built along the way.

Experience

Stanford — Covert Lab

Laboratory Manager / Senior Research Associate II
04/23 – Present
  • Implementing a GNN model to analyze live single-cell microscopy data across thousands of cell generations
  • Deploying scRNA-seq Nextflow workflows on HPC for omics data analysis
  • Developing single-cell microfluidic devices with 0.6 µm features in a cleanroom to image E. coli
  • Genomic engineering of E. coli via lambda red recombination and CRISPR systems

Genentech

Cell Culture Research Associate Intern
06/22 – 06/23
  • Built digital tools with Python and custom GraphQL APIs to automate data generation for researchers
  • Produced monoclonal antibodies in CHO cells using shake flasks and a benchtop 2L reactor
  • Developed Surface Enhanced Raman Spectroscopy protocols to characterize cytokines
  • Used Python to improve AutoML, PLS regression, and CNN-LSTM model data acquisition

Rubi Laboratories

Research Intern
06/21 – 09/21
  • Led a proof-of-concept study validating the core product, helping secure $4.5M in seed funding
  • Developed a small-molecule assay to validate the company's cell-free enzymatic carbon-capture technology
  • Worked with the business development team to build a project roadmap and industry network

Carbo Culture

Consultant
09/20 – 12/20
  • Identified a process gap and designed a mitigation strategy projected to save $380K over 25 years
  • Designed a thermal oxidizer to recycle waste heat and reduce CO2 emissions at pilot scale

Welander Lab

Microbiology Researcher
10/18 – 06/21
  • Investigated the essentiality of sterols in the methanotroph M. capsulatus, informing origin-of-life research
  • Identified an antibiotic that inhibits sterol production and used it to develop growth curves
  • Built bioinformatics visualizations for the lab using R and JGI BLAST tools

Projects

BioPyFlow

— Co-founder

A Python-native workflow manager built to lower the barrier for non-coding biologists — RNA-seq, ChIP-seq, ATAC-seq, metagenomics, and multi-omics pipelines.

Mother Machine Cell Tracker

— Author

Image-analysis pipeline for tracking single E. coli cells across generations in mother-machine microfluidic devices.

wcEcoli

— Collaborator

A mechanistic whole-cell model of E. coli, simulating gene expression and metabolism at single-cell resolution.

vEcoli

— Collaborator

An expanded, vectorized whole-cell model of E. coli, extending the mechanistic simulation framework.

Skills

Sequencing & NGS
Illumina library prep (TruSeq, Nextera, amplicon), NextSeq 2000 operation, bcl2fastq demultiplexing, sequencing QC & metrics review
Single-Cell
10x Genomics workflows, Cell Ranger, scRNA-seq support
Assays & QC
PCR / qPCR, Bioanalyzer / TapeStation, Qubit quantification
Pipelines & Data
Nextflow, Docker, Slurm / HPC, Python, R, SQL
Documentation & Operations
Benchling (ELN/LIMS), SOP authoring, Jira, BSL2 lab operations

Education & Awards

Education
M.S. Chemical Engineering
Stanford University — Conferred 2023
B.S. Chemical Engineering
Stanford University — Conferred 2021
Awards
  • School of Engineering Dean's Graduate Exceptional Master's Award (2023)
  • Engineering Coterminal Fellowship (2021)
  • ICME Fundamentals of Data Science Summer Workshop Certificate (2023)
  • Department of Chemical Engineering Faculty Award (2021)
  • Stanford Alumni Association Award of Excellence (2021)