Research

Antibiotic Resistance — Mutation Trajectory Prediction

Predicting the next resistance mutation given an ordered evolution history, over ALEdb plus CARD plus deep mutational scanning data. A LightGBM + autoregressive transformer + reranker stack lifts canonical-AMR top-3 from 0.17 to 0.403 across 14 drug classes.

Anesthesia Pipeline — Network-State Validation

Connectome-constrained network-state validator for C. elegans anesthesia. Predicts immobilization EC50, mutant phenotypes, and Eger non-immobilizer specificity from literature-grounded multi-target perturbation profiles applied to a 300-neuron Brian2 brain.

ARC Prize 2025

Ongoing attempt at the ARC-AGI benchmark — a pipeline-based approach to program synthesis, symmetry reasoning, and abstraction discovery.

C. elegans Connectomics + Transcriptomics

Multi-modal analysis asking how much of local wiring in a small nervous system is determined by topology vs. gene expression.

cfDNA Cancer Detection — A Cross-Cohort Recovery Story

Cell-free DNA methylation cancer detection over the Loyfer atlas. Cross-cohort AUROC on GSE122126 went from 0.217 (below random, model inverted) to 0.850 across four of five cancer types. The four mechanisms that closed the gap, and the literature check that showed they're not novel.

Clinical Trial Failure Prediction

Phase-3 trial outcome prediction over the AACT clinical trials database, with a leakage audit that proved the headline number is signal, not label encoding. Audited AUROC 0.8603. The audit methodology is the part worth carrying forward, not the model.

HSDE — Hybrid Symbolic Discovery Engine

Neural-symbolic reasoning prototypes: a recursive CA + attention + symbolic hybrid, and an Enhanced Symbolic Discovery Engine targeting AIME / SAT / GSM8K.

Student Researcher