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MarkAStevens04/README.md

MARK STEVENS in bold white capitals, with a diagonal chromatic-aberration sweep crossing the name every few seconds.

Animated 3D render of HIV-1 protease (PDB 1HSG), the homodimer tumbling in space with the inhibitor indinavir bound in the active site.

Computational biologist & full-stack developer based at UC Irvine, working at the interface of molecular biology, drug discovery, and software.
I build things that span molecular dynamics, structure prediction, and the web apps & pipelines that make them usable! I also founded BioBuilder.

GitHub Email

Typing SVG

🛠️  Tech Stack

💻  Languages & Web

🤖  ML / AI & Data

🧬  Computational Biology

🏗️  Infrastructure & Tooling

Experience timeline: BioBuilder (May 2026 – Present); RGFN Batched Learning (May 2026 – Present); NTv2 Interpretability (Jan 2026 – Feb 2026); Shell from scratch (Jan 2024 – Apr 2024)

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  1. cloudflare-kinetics-editor cloudflare-kinetics-editor Public

    Web-Based Biochemical Kinetics Editor 🧪✨

    TypeScript 4

  2. Kinetics-Editor Kinetics-Editor Public

    Project for PHY426 Course! Web-Based Biochemical kinetics editor.

    Python

  3. JCP410 JCP410 Public

    Simulation of Repressilator Synthetic Genetic circuit using biochemical kinetics with ODE Simulation & Stochastic Gillespie algorithm

    Python

  4. CSC413 CSC413 Public

    Protein Structure Prediction using Transformer model with pre-trained embeddings from ESMFold

    Python

  5. RGFN-Fork-v1 RGFN-Fork-v1 Public

    Forked from koziarskilab/RGFN

    A Late-Stage Diversification method for Reaction-GFlowNets.

    Python

  6. UHN_Technical_Test UHN_Technical_Test Public

    A Sparse Autoencoder trained on NTv2 embeddings for pathogenicity latent feature extraction.

    Jupyter Notebook