Metabolic Engineering
Why POX Knockout Comes First in Every Design
Every cultivar we've designed knocks out peroxidase before touching any other gene. Here's the flux analysis behind that decision — and why the data is unambiguous.
Lab Notes
Notes from the Greenhouse
Ongoing notes from the design and validation process. Not polished science communication — just honest accounts of what the models predict, what the protocols require, and what we’re still figuring out.
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Bioinformatics
Three Things We Learned from Codon Optimization Across 65 Organisms
GC content windows, restriction site conflicts, and the unexpected places where the codon optimizer's output disagreed with our manual intuitions. What we changed and why.
Pathway Modeling
The Vanillylamine Bottleneck: What the Flux Numbers Actually Say
The 90% flux control coefficient for the vanillylamine branch wasn't a surprise to the model — but confirming it required building the full 44-reaction pathway and checking every edge case. This is that story.
Uncertainty
How Uncertain Are the Cross-Species SHU Predictions?
Tomato at 2.2M SHU sounds precise. It isn't — at least not yet. A frank look at the error bars on our beyond-pepper predictions and what it would take to tighten them.
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