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Machine Learning

Biodesign

+8

From Working to Holding in AI Biodesign

Apr 30, 2026

•

6 min read

From Working to Holding in AI Biodesign

Why experimental validation doesn’t guarantee structural reliability in protein design

Raphael Kim, PhD
Raphael Kim, PhD

Biodesign

+7

AI is Not the Opposite of Nature

Oct 19, 2025

•

7 min read

AI is Not the Opposite of Nature

Why we need to talk about responsibility before intelligence.

Raphael Kim, PhD
Raphael Kim, PhD

Biodesign

+3

Before you build: instant safety briefs for biodesign projects

Oct 5, 2025

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6 min read

Before you build: instant safety briefs for biodesign projects

A Co-Pilot for safer biodesign

Raphael Kim, PhD
Raphael Kim, PhD

Biodesign Fundamentals

+4

Newsletter #30: Games, Gaps, and Agents

Aug 21, 2025

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10 min read

Newsletter #30: Games, Gaps, and Agents

What's been brewing this week?

Raphael Kim, PhD
Raphael Kim, PhD

Algae

+15

History and Scope of AI in Biodesign

Aug 14, 2025

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22 min read

History and Scope of AI in Biodesign

A Career-Oriented Guide for Students & Educators

Raphael Kim, PhD
Raphael Kim, PhD

Research Tool

+13

AI Is Changing How We Make Bio-Materials

Aug 3, 2025

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9 min read

AI Is Changing How We Make Bio-Materials

And Why Biodesigners Should Care

Raphael Kim, PhD
Raphael Kim, PhD

Research Tool

+6

The Enzyme Whisperers

Jul 29, 2025

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9 min read

The Enzyme Whisperers

AI that reads sequences like fortune tellers read palms (and actually gets the predictions right)

Raphael Kim, PhD
Raphael Kim, PhD

Research Tool

+6

Designing with Shape‐Shifting (Fold‐Switching) Proteins

Jul 18, 2025

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4 min read

Designing with Shape‐Shifting (Fold‐Switching) Proteins

Research Tool

+2

From Observer to Designer: A Complete Toolkit for Slime Mold Biodesign
LockSimple

Jul 15, 2025

•

9 min read

From Observer to Designer: A Complete Toolkit for Slime Mold Biodesign

Transforming Physarum polycephalum from scientific curiosity to design medium

Research Tool

+6

SCOBY Biodesign Idea Generator
LockSimple

Jul 7, 2025

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8 min read

SCOBY Biodesign Idea Generator

An AI Prompt Toolkit for Biodesign Academy Foundational Tier

Research Tool

+4

When Your AI Makes "Mistakes" That Are Actually Helpful
LockSimple

Jun 30, 2025

•

6 min read

When Your AI Makes "Mistakes" That Are Actually Helpful

Introducing AlphaFaults as Biodesign Methodology

Foundational Tier

+7

Should We Compute or Cultivate?
LockSimple

May 6, 2025

•

12 min read

Should We Compute or Cultivate?

AI, Biodesign, and the Real Environmental Trade-Offs

Paid Tier Preview

+4

AI for Regenerative Design: Introducing AlphaFold 3

Apr 22, 2025

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12 min read

AI for Regenerative Design: Introducing AlphaFold 3

Sustainable making and biodesign through computational insight

Machine Learning

+5

AI-Driven Protein Engineering: What it Means for Biodesign Practice

Mar 15, 2025

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11 min read

AI-Driven Protein Engineering: What it Means for Biodesign Practice

Lessons from a curious case of a tropical enzyme

Raphael Kim, PhD
Raphael Kim, PhD

Automotive

+5

Designing for Survival of the Safest

Oct 23, 2024

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12 min read

Designing for Survival of the Safest

Synthetic DNA and Machine Learning are Shaping Evolution of Electric Vehicles

Raphael Kim, PhD
Raphael Kim, PhD
Biodesign Academy

Biodesign Academy

A judgment publication operating upstream of AI-driven biological design decisions.

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