Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add adaptyvbio/protein-design-skills --skill cell-free-expressiongit clone --depth 1 https://github.com/adaptyvbio/protein-design-skillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/adaptyvbio/protein-design-skills/cell-free-expression)<a href="https://agentmods.dev/skills/adaptyvbio/protein-design-skills/cell-free-expression"><img src="https://agentmods.dev/badge/skills/adaptyvbio/protein-design-skills/cell-free-expression/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/adaptyvbio/protein-design-skills/cell-free-expression"><img src="https://agentmods.dev/badge/skills/adaptyvbio/protein-design-skills/cell-free-expression.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector warn
SkillSpector: 1 finding, up to medium
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- medium analysis-evasion · line 1 Suspicious Unicode normalization or mixed-script contentFix: Review the flagged content for security risks. Ensure no credentials, secrets, or sensitive data are exposed.
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00067 | $0.03184 |
| Opus 5 | $0.00034 | $0.01592 |
| Sonnet 5 | $0.00013 | $0.00637 |
| Haiku 4.5 | $0.00007 | $0.00318 |
Grade A, and why
cell-free-expression scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 11d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
Copies of this mod
1 near-identical copy found in the catalogue:
- cell-free-protein-expression — 95% identical, 22 lines differ
How it starts
The opening of the file, as written. The whole thing — 292 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Cell-Free Protein Synthesis (CFPS)
System Selection Guide
| System | Best For | Yield | PTMs | Disulfides | Cost |
|---|---|---|---|---|---|
| E. coli extract | Rapid prototyping, prokaryotic proteins | High (100-400 μg/mL) | None | Poor (reducing) | Low |
| E. coli PURE | Defined conditions, unnatural AAs | Medium (50-150 μg/mL) | None | Controllable | High |
| Wheat germ | Eukaryotic proteins, membrane proteins | High (100-500 μg/mL) | Limited | Moderate | Medium |
| Rabbit reticulocyte | Mammalian proteins, post-translational studies | Low (10-50 μg/mL) | Some | Poor | High |
| Insect (Sf21) | Glycoproteins, complex folds | Medium (50-100 μg/mL) | Glycosylation | Good | High |
| HeLa/CHO | Native mammalian proteins | Low (10-50 μg/mL) | Full mammalian | Good | Very High |
CFPS Troubleshooting Matrix
| Problem | Likely Causes | Design Fix | Reagent Fix |
|---|---|---|---|
| No expression | Rare codons at N-terminus, poor RBS | Codon optimize first 30 codons | Use BL21-CodonPlus extract |
| Low yield | Strong mRNA secondary structure, template issues | Optimize 5' UTR (ΔG > -5 kcal/mol) | Increase Mg²⁺ (10-18 mM), ATP |
| Aggregation | Hydrophobic protein, fast translation | Add solubility tags (MBP, SUMO) | Add 0.1% Tween-20, chaperones |
| Inactive protein | Misfolding, missing cofactors | Slow translation (use rare codons!) | Add GroEL/ES, DnaK/J |
| Truncation | Rare codon clusters, mRNA instability | Remove AGG/AGA/CUA clusters | Supplement rare tRNAs |
| Degradation | Proteolysis | N-terminal Met-Ala | Add protease inhibitors |
Codon Optimization for CFPS
Codons to Avoid in E. coli CFPS
| Codon | Amino Acid | Issue | tRNA Abundance |
|---|---|---|---|
| AGG | Arg | Very rare, stalling | 0.2% |
| AGA | Arg | Very rare, stalling | 0.4% |
| CUA | Leu | Low abundance | 0.4% |
| AUA | Ile | Rare | 0.5% |
| CGA | Arg | Inefficient decoding | 0.6% |
| CCC | Pro | Can cause pausing | 0.5% |
| GGA | Gly | Moderate | 1.1% |
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 11d ago First seen · 292 lines · 67 tokens per session scan A f6ec951e3962
cell-free-expression is a skill published in the GitHub repository adaptyvbio/protein-design-skills (158 stars, last pushed 3mo ago), licensed MIT. It adds 67 tokens to every session and 3,184 once invoked, about $0.0003 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
Other skills, from other repositories
cell-free-protein-expression
Cell-free protein synthesis (CFPS) planning and optimization guidance. Use when: (1) Planning CFPS experiments, (2) Troubleshooting low yield or aggregation, (3) Optimizing DNA template design for CFPS, (4) Expressing difficult proteins (disulfide-rich, toxic, membrane).
cell-free-expression
Guidance for cell-free protein synthesis (CFPS) optimization. Use when: (1) Planning CFPS experiments, (2) Troubleshooting low yield or aggregation, (3) Optimizing DNA template design for CFPS, (4) Expressing difficult proteins (disulfide-rich, toxic, membrane).
cell-free-expression
Guidance for cell-free protein synthesis (CFPS) optimization. Use when: (1) Planning CFPS experiments, (2) Troubleshooting low yield or aggregation, (3) Optimizing DNA template design for CFPS, (4) Expressing difficult proteins (disulfide-rich, toxic, membrane).
cell-free-protein-expression
Cell-free protein synthesis (CFPS) planning and optimization guidance. Use when: (1) Planning CFPS experiments, (2) Troubleshooting low yield or aggregation, (3) Optimizing DNA template design for CFPS, (4) Expressing difficult proteins (disulfide-rich, toxic, membrane).
binding-characterization
Guidance for SPR and BLI binding characterization experiments. Use when: (1) Planning binding kinetics experiments, (2) Troubleshooting poor/no binding signal, (3) Interpreting kinetic data artifacts, (4) Choosing between SPR vs BLI platforms.
binding-characterization
Guidance for SPR and BLI binding characterization experiments. Use when: (1) Planning binding kinetics experiments, (2) Troubleshooting poor/no binding signal, (3) Interpreting kinetic data artifacts, (4) Choosing between SPR vs BLI platforms.