Scientific Critical Thinking
weapp-tailwindcss/weapp-tailwindcss
Evaluate research rigor. An agent skill from weapp-tailwindcss/weapp-tailwindcss.
A skill your agent uses whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology.
Install Shizuo Akira
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install K-Dense-AI/mimeographs shizuo-akira --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .claude/skills && cp -r skills-src/mimeographs/shizuo-akira .claude/skills/shizuo-akira && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .claude/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akiraType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install K-Dense-AI/mimeographs shizuo-akira --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .agents/skills && cp -r skills-src/mimeographs/shizuo-akira .agents/skills/shizuo-akira && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .agents/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install K-Dense-AI/mimeographs shizuo-akira --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/mimeographs/shizuo-akira .cursor/skills/shizuo-akira && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .cursor/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/K-Dense-AI/mimeographs.git --path mimeographs/shizuo-akira--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install K-Dense-AI/mimeographs shizuo-akira --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/mimeographs/shizuo-akira .gemini/skills/shizuo-akira && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .gemini/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install K-Dense-AI/mimeographs shizuo-akiraInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .github/skills && cp -r skills-src/mimeographs/shizuo-akira .github/skills/shizuo-akira && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .github/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install K-Dense-AI/mimeographs shizuo-akira --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/K-Dense-AI/mimeographs.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/mimeographs/shizuo-akira .opencode/skills/shizuo-akira && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "shizuo-akira" agent skill from https://github.com/K-Dense-AI/mimeographs/tree/main/mimeographs/shizuo-akira into .opencode/skills/shizuo-akira/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "shizuo-akira", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
Facts
- Skill name
shizuo-akira- GitHub stars
- 129
- Token cost
- ~1.3k tokens
- SKILL.md length
- 592 words
- Files
- 72 (incl. references)
- Skills in repo
- 60
- Repo updated
- First seen
- Licence
- MIT
At a glance
A skill your agent uses whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology.
- Reasoning about immunology
- SKILL.md covers Core principles, How Shizuo Akira reasons, Applying the frameworks and Anti-patterns he pushes against, plus 1 more section
- Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md
- Host-pathogen interactions
What it does
Shizuo Akira is an agent skill from K-Dense-AI/mimeographs. Use this skill whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology. It is also highly relevant for scientific career strategy, particularly when discussing independence, pivoting research domains, or using reverse genetics (like knockout mice) for discovery. Channel Shizuo Akira, immunologist and pioneer of pattern-recognition receptors, to apply rigorous experimental standards (e.g., demanding chemically…
Its SKILL.md is about 1.3k tokens, which your agent loads only when the skill is triggered. The skill folder holds 74 other files, including reference files (for example `AGENTS.md`, `_workspace/agents_output.e584bd6c.json` and `_workspace/clustered_corpus.e584bd6c.json`).
It sits in Research & Science, covering Experimental design. The repository describes itself as: Ready-to-use agent skills that clone the thinking of founders, philosophers, and scientists into your agent. Generated with K-Dense-AI/mimeo. The licence is MIT.
When your agent uses it
- Reasoning about immunology
- Host-pathogen interactions
- Innate immunity
- Toll-like receptors (TLRs)
Example prompts
- “/shizuo-akira”
What it can do on your machine
Read from SKILL.md and the folder at commit a38f5fc. It shows what the files ask for, not the result of running them.
Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
No scripts in the folder and no shell commands in SKILL.md.
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Shizuo Akira loads about 1.3k tokens when it runs, and up to ~4.7k if it reads all its reference files. Until then it costs about 169 tokens; SKILL.md has 592 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
Safety
Auto-check passed
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
SKILL.md
The full file from K-Dense-AI/mimeographs at commit a38f5fc, republished under its MIT licence (© K-Dense-AI). 592 words, ~1,317 tokens.
Download SKILL.mdSave it as
.claude/skills/shizuo-akira/SKILL.md (or your agent's skills folder). This skill also uses 71 other files; get the full folder from GitHub.- name
- shizuo-akira
- description
- Use this skill whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology. It is also highly relevant for scientific career strategy, particularly when discussing independence, pivoting research domains, or using reverse genetics (like knockout mice) for discovery. Channel Shizuo Akira, immunologist and pioneer of pattern-recognition receptors, to apply rigorous experimental standards (e.g., demanding chemically synthesized mimics over purified extracts) and to view innate immunity as a highly specific, compartmentalized system rather than a primitive defense.
Thinking like Shizuo Akira
Shizuo Akira revolutionized our understanding of innate immunity by proving it is a highly specific sensor system, not a primitive, non-specific defense. His thinking is characterized by rigorous experimental validation, evolutionary logic (targeting unchangeable pathogen components), and bold scientific independence. He views biological systems mechanistically, tracing how physical compartmentalization and signaling cascades dictate complex responses.
Reach for this skill whenever you're analyzing immune responses, designing biological experiments, evaluating ligand-receptor interactions, or advising scientists on career transitions and research strategy.
Core principles
- Specificity of Innate Immunity: Treat innate immunity as a highly specific discriminator between self and pathogen, not a primitive catch-all.
- Targeting Essential Pathogen Components: Look for receptors that target essential, unalterable survival components of a system (PAMPs) to prevent evasion.
- Tailored Response via Compartmentalization: Understand that the physical location of a receptor (e.g., cell surface vs. endosome) dictates its function and safeguards against self-activation.
- Rigor in Ligand Research: Demand chemically synthesized mimics over biochemically purified extracts to rule out trace contamination.
- Scientific Independence: Abandon comfortable, inherited research themes to carve out entirely new scientific territories.
For detailed rationale and quotes, see references/principles.md.
How Shizuo Akira reasons
Akira reasons through a highly mechanistic and spatial lens. When examining a biological response, he first asks: Where is the receptor located, and what is the exact molecular pathway it triggers? He relies heavily on the Receptor Compartmentalization mental model, understanding that physical sequestration (like placing nucleic-acid sensors inside endosomes) is an evolutionary safeguard against autoimmune reactions.
He views biological regulation as a dual-phase controller, applying the Brake and Negative Feedback model. He assumes systems have a constant brake during steady states that is removed upon stimulation and quickly re-induced to shut off the response. Methodologically, he is a pioneer of reverse genetics, using knockouts not merely to validate hypotheses, but as an exploratory search tool to uncover entirely new biological themes. For more on these models, see references/mental-models.md.
Applying the frameworks
Knockout-Driven Discovery
Use this when advising on how to uncover the function of novel gene families or enter new biological fields. Steps: Generate knockout models -> Observe in vivo phenotypes (survival, inflammation) -> Trace the responsible molecular signaling pathways.
Show full SKILL.md (232 more words)Show less
TLR Signaling Activation Cascade
Use this when mapping how cells translate pathogen recognition into inflammatory and antiviral responses. Steps: Ligand binding and dimerization -> Adaptor molecule recruitment (e.g., MyD88) -> Downstream kinase cascade -> Transcription factor translocation.
For the full catalog of steps and rationale, see references/frameworks.md.
Anti-patterns he pushes against
- Dismissing Innate Immunity as Primitive: Never treat the innate immune system as merely a non-specific first line of defense; it is the specific trigger for adaptive immunity.
- Relying on Purified Microbial Components: Do not trust biochemically purified extracts for definitive receptor-ligand conclusions; trace contaminants will mislead you.
- Inheriting the Mentor's Research: Do not continue your former mentor's research from the beginning when starting your own independent laboratory.
How to use this skill in conversation
When the user is designing an assay or interpreting receptor activation data, warn them about extract contamination by invoking Akira's principle of Rigor in Ligand Research. When a user is discussing immune regulation or autoimmune safeguards, apply the Receptor Compartmentalization or Brake and Negative Feedback models to explain how the body prevents spontaneous inflammation. When a young scientist asks for career advice, push them to Seek Your Own Territory and abandon comfortable inherited projects, citing Akira's own pivot into innate immunity. Always avoid impersonation—do not pretend to be Akira. Instead, apply his rigorous, mechanistic, and independent mindset to the user's specific context, citing him as the source of the framework.
© K-Dense-AI, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
Files
SKILL.md and 71 other files (references) in mimeographs/shizuo-akira of K-Dense-AI/mimeographs.
- SKILL.md
- AGENTS.md
- _workspace/agents_output.e584bd6c.json
- _workspace/clustered_corpus.e584bd6c.json
- _workspace/discovery/books.json
- _workspace/discovery/essays.json
- _workspace/discovery/frameworks.json
- _workspace/discovery/interviews.json
- _workspace/discovery/letters.json
- _workspace/discovery/papers.json
- _workspace/discovery/podcasts.json
- _workspace/discovery/ranked_sources.e584bd6c.json
- _workspace/discovery/talks.json
- _workspace/distilled/src_000.e584bd6c.json
- _workspace/distilled/src_001.e584bd6c.json
- _workspace/distilled/src_002.e584bd6c.json
- _workspace/distilled/src_003.e584bd6c.json
- _workspace/distilled/src_004.e584bd6c.json
- … and 54 more
Open the folder on GitHubat commit a38f5fc
Compare with similar skills
Shizuo Akira next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Shizuo Akira this skillK-Dense-AI/mimeographs | 129 | — | ~1.3k | Automated safety check: Pass | MIT | |
| Scientific Critical Thinkingweapp-tailwindcss/weapp-tailwindcss | 1.9k | 22 repos | ~5.9k | Automated safety check: Notes | MIT | |
| Benchmark Paper TemplateHKUSTDial/Supervisor-Skills | 8.8k | — | ~2.8k | Automated safety check: Pass | CC-BY-4.0 | |
| Claim-Driven Experiment PlannerzjYao36/Auto-Research-Refine | 128 | 6 repos | ~2.3k | Automated safety check: Notes | None | |
| Research Refine PipelinezjYao36/Auto-Research-Refine | 128 | 5 repos | ~1.4k | Automated safety check: Notes | None | |
| Metabolic Study Planneraiming-lab/AutoResearchClaw | 15k | — | ~1.9k | Automated safety check: Pass | MIT |
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Benchmark Paper Template
HKUSTDial/Supervisor-Skills
Structures benchmark and evaluation papers around five pillars, with a completeness audit, an Introduction logic chain, a section skeleton and a pre-submission checklist.
Claim-Driven Experiment Planner
zjYao36/Auto-Research-Refine
Turns a refined research proposal into a claim-to-evidence-to-run-order roadmap instead of a sprawling benchmark wishlist.
Research Refine Pipeline
zjYao36/Auto-Research-Refine
Chains research-refine and experiment-plan to turn a vague research direction into a focused proposal and a claim-driven experiment roadmap.
Metabolic Study Planner
aiming-lab/AutoResearchClaw
Turns a broad metabolic modelling topic into a concrete, paper-shaped plan with organism, model, perturbations, metrics and figures before any FBA code is written.
Analytical Method Validation Planner
K-Dense-AI/scientific-agent-skills
Plans, runs, and documents analytical method validation, verification, or transfer studies under ICH Q2(R2)/Q14, USP, ICH M10, CLSI EP, or ISO/IEC 17025.
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Related
Categories
Questions about Shizuo Akira
What does Shizuo Akira do?
A skill your agent uses whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology. Shizuo Akira is an agent skill from K-Dense-AI/mimeographs. Use this skill whenever reasoning about immunology, host-pathogen interactions, innate immunity, Toll-like receptors (TLRs), or experimental design in molecular biology.
When should I use Shizuo Akira?
Shizuo Akira fits situations like: reasoning about immunology; host-pathogen interactions; innate immunity; toll-like receptors (TLRs).
How do I install Shizuo Akira in Claude Code?
Run `npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a claude-code`. Or copy the skill folder (mimeographs/shizuo-akira in K-Dense-AI/mimeographs) into .claude/skills/shizuo-akira in your project. Claude Code loads it when a task matches its description.
How do I install Shizuo Akira in Codex?
Run `npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a codex`. Or copy the skill folder (mimeographs/shizuo-akira in K-Dense-AI/mimeographs) into .agents/skills/shizuo-akira in your project. Codex loads it when a task matches its description.
Can I use Shizuo Akira in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add K-Dense-AI/mimeographs --skill shizuo-akira -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/shizuo-akira, .gemini/skills/shizuo-akira, .github/skills/shizuo-akira and .opencode/skills/shizuo-akira in your project.
What does Shizuo Akira need to run?
SKILL.md names no scripts, command-line tools or credentials: Shizuo Akira is instructions for the agent only.
Does Shizuo Akira access the network?
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Is Shizuo Akira safe to install?
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
What licence does Shizuo Akira use?
Shizuo Akira is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
How many tokens does Shizuo Akira use?
About 1.3k tokens (SKILL.md is roughly 5.3k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 3.4k tokens, read only when the agent opens those files.
What are the alternatives to Shizuo Akira?
Skills that share tags, products or a category with Shizuo Akira: Scientific Critical Thinking (weapp-tailwindcss/weapp-tailwindcss, 1.9k stars), Benchmark Paper Template (HKUSTDial/Supervisor-Skills, 8.8k stars), Claim-Driven Experiment Planner (zjYao36/Auto-Research-Refine, 128 stars) and Research Refine Pipeline (zjYao36/Auto-Research-Refine, 128 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Shizuo Akira?
K-Dense-AI (a GitHub organization) maintains it in K-Dense-AI/mimeographs, which has 129 GitHub stars. The repository holds 60 skills in this directory. The repository was last updated on August 18, 2026.
Source: K-Dense-AI/mimeographs on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.