tap a square! the tiles are photos

Emilin Mathew
hi, I'm Emi

I program biology and engineer its guardrails.

About

My About Me Pages Over Time

A brief history of trying to explain myself. click the pins to see!

A childhood trifold poster titled My Very Own Poster All About Me

Selected work

01 Biosecurity Research

Omnyra

An AI native pathogen detection pipeline that flags engineered virulence, toxins, and resistance beyond homology. Built with the FBI WMD Directorate and the Defense Innovation Unit.

Visit Omnyra →
FBI WMD, DIU2025 to now
02 Speaking

TEDx: We Are The Breakthrough

TEDx: We Are The Breakthrough

On science education and who actually gets to do research. Given at seventeen, it is still the argument underneath everything I build.

Watch the talk →
TEDx2019
03 Speaking

Asking Sam Altman about biosecurity

Sam Altman Q&A

Fifty AI builders sat down with Sam Altman. I asked him what OpenAI's actual strategy was for biosecurity, and the clip went semi-viral.

Watch the clip →
OpenAI2025
04 Cardiovascular Modeling

Digital Twins of the Heart

carotid graft · live flow

A no-code vasculature modeler that cuts setup from 30 minutes to under one, plus a hemodynamics visualizer. Both shipped into svZeroDSolver and used by 1,000+ researchers. Honors thesis on vein graft failure after bypass surgery.

View svZeroDGUI → View svZeroDVisualization →
Stanford Biomechanics Lab2024 to now
05 Protein ML

ProtMAE

Masked autoencoding of protein distance maps for structure-aware representation learning. Self-supervised over 822k fragments, reaching 78% secondary structure accuracy.

View the code → Read the CS231n report →
Stanford CS231n2025
06 Product & Strategy

OpenAI

At OpenAI HQ, from running Stanford's ChatGPT Lab ⤢ View

Launched OpenAI's first campus ambassadorship program across 70+ campuses, ran Stanford's ChatGPT Lab, and helped lead the community and engagement team.

Project Director2025 to now
07 Protein ML

Protiformer

Natural language guided protein engineering. Aligns protein structure embeddings and text through contrastive learning, then decodes modified 3D structures and sequences straight from an instruction like “increase alpha helices.” Built on a GNN Transformer trained over 250k proteins.

View the code →
Research project2024
08 Software Engineering

Amazon Cloud Architected Network

A multi agent system that automatically remediates security debt across Amazon's traffic engineering org. Roughly 200 engineer hours saved a month and 70% adoption.

Amazon2025
09 Product & Strategy

Google DeepMind

Surveyed 300+ students across 10+ universities into archetypes that informed Gemini's product roadmap, and ran DeepMind's first U.S. collegiate hackathon on a $20K engagement.

Project Director2025 to now
10 Strategy & Consulting

Stanford Consulting

Project Director and Senior Consultant. Advised a global crisis-response initiative on governance and MVP strategy, and delivered a market expansion roadmap for an EV startup. My OpenAI and Google DeepMind engagements ran through Stanford Consulting.

Project Director2022 to now
11 Venture

FoundersX Ventures

Tech investment associate running end to end due diligence on Y Combinator startups, with deep dives across generative AI, biotech, and fintech to inform LP strategy.

Visit FoundersX →
Investment Associate2022 to 2024
12 Lab Automation

Fourth Eon Bio

Program Manager for the Cloud Lab, standing up and leading the new division.

Visit Fourth Eon Bio →
Program Manager2025
13 Machine Learning

Transplant Risk Modeling

Models on the national transplant registry that identify at risk kidney grafts at 95% accuracy, supporting earlier allocation decisions.

Stanford GSB2023
Nature, in press

Generative AI for Biosciences: Emerging Threats and a Roadmap to Biosecurity

Maps the misuse risks that generative biology creates and lays out a concrete roadmap for screening, evaluation, and governance.

Read the preprint
Journal of Open Source Software, 2025

svZeroDSolver: A modular package for lumped parameter cardiovascular simulations

An open source solver for zero dimensional models of blood flow, used to simulate patient specific cardiovascular physiology.

View publication
Briefings in Bioinformatics, 2025

Function aware biosecurity screening: datasets, benchmarks, and detection systems

Introduces datasets and benchmarks for screening synthesized DNA by predicted function rather than sequence homology alone.

View publication
Autism Research, 2022

Objective measurement of vocalizations in autism assessment

Uses automated vocalization analysis to derive objective, quantitative markers that complement clinical autism assessments.

View publication
Journal of Emerging Investigators, 2021

Testing HCN1 channel dysregulation in the prefrontal cortex using a novel piezoelectric silk neuromodulator

Prototypes a piezoelectric silk device to modulate HCN1 activity in the prefrontal cortex and probe its role in cognition.

View publication
Journal of Emerging Investigators, 2019

Evaluating biomarkers and treatments for acute kidney injury in a zebrafish model

Uses a zebrafish model to compare candidate biomarkers and therapies for acute kidney injury.

View publication
also... i wrote a manifesto
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