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 zongtingwei/Bioclaw_Skills_Hub --skill cell-free-protein-expressiongit clone --depth 1 https://github.com/zongtingwei/Bioclaw_Skills_HubWrote 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/zongtingwei/bioclaw_skills_hub/cell-free-protein-expression)<a href="https://agentmods.dev/skills/zongtingwei/bioclaw_skills_hub/cell-free-protein-expression"><img src="https://agentmods.dev/badge/skills/zongtingwei/bioclaw_skills_hub/cell-free-protein-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/zongtingwei/bioclaw_skills_hub/cell-free-protein-expression"><img src="https://agentmods.dev/badge/skills/zongtingwei/bioclaw_skills_hub/cell-free-protein-expression.svg" alt="Reviewed on agentmods" width="80" height="20"></a>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 | $0.00069 | $0.03340 |
| Opus 5 | $0.00034 | $0.01670 |
| Sonnet 5 | $0.00014 | $0.00668 |
| Haiku 4.5 | $0.00007 | $0.00334 |
Grade A, and why
cell-free-protein-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 12d 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.
This is a copy
95% identical to cell-free-expression — 22 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.
How it starts
The opening of the file, as written. The whole thing — 310 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Cell-Free Protein Synthesis (CFPS)
Plain-language role: Use this skill to plan expression screens and improve yield or solubility in cell-free systems.
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 ships with it
1 file beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
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.
- 12d ago First seen · 310 lines · 69 tokens per session scan A 0c0778fc7eb1
cell-free-protein-expression is a skill published in the GitHub repository zongtingwei/Bioclaw_Skills_Hub (26 stars, last pushed 5mo ago), licensed MIT. It adds 69 tokens to every session and 3,340 once invoked, about $0.0003 per session on Opus 5. A static security scan graded it A with 0 findings. It is 95% identical to cell-free-expression, differing in 22 lines, and is treated as a copy.
Other skills, from other repositories
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).
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).
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.
academic-paper-to-chinese-insight-pdf
Turn an academic paper PDF into a high-quality Chinese insight report and export it as a polished Chinese PDF. Use when asked to read a paper, translate or summarize a paper into Chinese, extract the paper's core ideas, produce original insights/opinions, explain the paper in simpler language, or deliver a Chinese PDF…