# For Researchers & Scientists

**Build AI agents that automate literature review, data analysis, and hypothesis generation — saving weeks of manual research work.**

---

## Your Pain Points

- ❌ Literature reviews take weeks of manual reading and synthesis
- ❌ Data analysis pipelines are fragile and time-consuming
- ❌ Hypothesis generation relies on manual cross-referencing
- ❌ Keeping up with new publications is overwhelming
- ❌ Reproducibility requires extensive documentation

## What You Can Build

### 🎯 Quick Win: Literature Review Agent (15 minutes)

**ROI:** 10x faster literature synthesis

**Skills:** 2 skills

```
pubmed_search → paper_summarizer
```

**What it does:**

- Automatically searches PubMed for relevant papers
- Generates structured summaries of findings
- Identifies key citations and methodologies
- Exports organized bibliography

**Time saved:** 2-3 weeks → 2-3 hours per literature review

[See implementation guide →](../QUICK_WINS.md#15-minute-win-literature-review)

---

### 🚀 High-Impact: Research Pipeline Agent (1 hour)

**ROI:** Complete research workflow automation

**Skills:** 5 skills

```
pubmed_search → paper_summarizer → hypothesis_generator →
experimental_design → data_analyzer
```

**What it does:**

- Automated literature discovery and synthesis
- AI-powered hypothesis generation from existing research
- Experimental design recommendations
- Statistical analysis and visualization
- Reproducible research pipeline

**Impact:**

- Accelerate discovery phase by 5-10x
- Generate novel hypotheses from literature
- Reproducible analysis pipelines

[See step-by-step recipe →](../SKILL_CHAINS.md#recipe-5-research-pipeline)

---

### 💼 Enterprise: Drug Discovery Agent (Half day)

**ROI:** Months of analysis in days

**Skills:** 8 skills

```
uniprot_search → protein_structure_analyzer → drug_target_identifier →
compound_similarity_search → molecular_docking → toxicity_predictor →
clinical_trial_analyzer → regulatory_pathway_mapper
```

**What it does:**

- Target identification from protein databases
- Structure-based drug design
- Compound screening and optimization
- Toxicity and safety prediction
- Clinical trial analysis and regulatory planning

**Impact:**

- Compress early discovery from months to days
- Data-driven target selection
- Automated compound optimization

---

## Top 10 Skills for Researchers

### Literature & Discovery

1. **pubmed_search** — Automated PubMed queries with filters
2. **paper_summarizer** — Extract key findings and methods
3. **citation_mapper** — Build citation networks

### Data Analysis

4. **statistical_analyzer** — Automated statistical tests
5. **data_visualizer** — Generate publication-ready plots
6. **reproducibility_checker** — Validate analysis pipelines

### Bioinformatics

7. **uniprot_search** — Protein database queries
8. **sequence_alignment** — Multiple sequence alignment
9. **protein_structure_analyzer** — AlphaFold integration

### Drug Discovery

10. **drug_target_identifier** — Identify therapeutic targets

[Browse all 141 scientific skills →](../directory.md)

---

## Real Results

### Case Study: Academic Research Lab

**Lab:** Cancer biology lab, 5 researchers
**Challenge:** Manually reviewing 50+ papers/week, slow hypothesis generation

**Solution:** Deployed literature review → hypothesis generation chain

**Results:**

- ⚡ Literature review time: 3 weeks → 6 hours
- 📈 Papers synthesized: 50/week → 200/week
- 💡 Novel hypotheses: 2x increase in generated ideas
- 🎯 Grant success: Faster background research for proposals
- 📊 Publication rate: 3 papers/year → 5 papers/year

**Time saved:** 20 hours/week per researcher

---

## Common Skill Chains for Research

### Literature Review & Synthesis

```
pubmed_search → paper_summarizer → citation_mapper → hypothesis_generator
```

**Use when:** Starting new research direction, writing grants

### Protein Analysis Pipeline

```
uniprot_search → sequence_alignment → protein_structure_analyzer →
binding_site_predictor
```

**Use when:** Analyzing protein targets, structure-function studies

### Drug Discovery Workflow

```
drug_target_identifier → compound_similarity_search → molecular_docking →
toxicity_predictor
```

**Use when:** Target-based drug discovery, lead optimization

### Data Analysis & Visualization

```
data_cleaner → statistical_analyzer → data_visualizer → reproducibility_checker
```

**Use when:** Analyzing experimental data, preparing publications

### Clinical Research

```
clinical_trial_analyzer → patient_cohort_matcher → outcome_predictor →
regulatory_pathway_mapper
```

**Use when:** Clinical study design, translational research

---

## Getting Started

### Step 1: Install Research Skills

```bash
npm install @skene/skills-directory
npx skills-directory install --target all
```

### Step 2: Choose Your Quick Win

Pick the quick win that matches your time investment:

- **15 minutes:** [Literature Review Agent](../QUICK_WINS.md#15-minute-win-literature-review)
- **1 hour:** Research Pipeline Agent
- **Half day:** Drug Discovery Agent

### Step 3: Deploy & Iterate

- Connect to research databases (PubMed, UniProt, etc.)
- Run on sample dataset or query
- Validate results against manual review
- Integrate into research workflow

---

## ROI Calculator

**Your Lab:**

- Researchers: **\_**
- Hours/week on literature review: **\_**
- Hours/week on data analysis: **\_**
- Average hourly cost: $**\_**

**With Research Agents:**

- Literature review time: 80% reduction
- Data analysis time: 60% reduction
- Time saved/week: **\_** hours
- Cost savings/month: **\_** hours × 4 weeks × $_____ = **$**\_**/month\*\*
- Annual savings: **$**\_**/year**

**Typical Results:**

- Small lab (3-5 researchers): $10K-$20K/year saved
- Medium lab (10-15 researchers): $40K-$80K/year saved
- Large lab (20+ researchers): $100K+/year saved

---

## Research Tool Integrations

Our scientific skills integrate with leading research platforms:

✅ **PubMed/NCBI** — Literature search and retrieval
✅ **UniProt** — Protein sequence and function databases
✅ **AlphaFold** — Protein structure prediction
✅ **ChEMBL** — Bioactive molecule database
✅ **ClinicalTrials.gov** — Clinical trial data
✅ **PDB** — Protein Data Bank queries
✅ **BLAST** — Sequence similarity search
✅ **STRING** — Protein-protein interaction networks

Each skill uses official APIs and follows best practices for reproducibility.

---

## Supported Research Domains

**Biomedical Research**

- Drug discovery and development
- Target identification and validation
- Biomarker discovery

**Molecular Biology**

- Sequence analysis
- Protein structure and function
- Gene expression analysis

**Clinical Research**

- Clinical trial design
- Patient cohort analysis
- Outcome prediction

**Computational Biology**

- Systems biology modeling
- Network analysis
- Multi-omics integration

**Chemistry**

- Compound screening
- Structure-activity relationships
- Toxicity prediction

---

## Next Steps

1. **Quick Win:** Start with literature review agent (15 min)
2. **Explore:** Browse [all research skill chains](../SKILL_CHAINS.md)
3. **Community:** Share your research workflows
4. **Scale:** Build custom research pipelines

---

## Additional Resources

- [Complete Skills Directory](../directory.md) — Browse all 141 scientific skills
- [Skill Chain Cookbook](../SKILL_CHAINS.md) — 36+ ready-to-use recipes (includes [Recipe 33: Scientific Research Synthesis](../SKILL_CHAINS.md#recipe-33-scientific-research-synthesis-pipeline))
- [Playbooks](../PLAYBOOKS.md) — Niche playbooks and exact data to wire
- [Value & ROI Guide](../VALUE.md) — Detailed ROI calculations
- [Security Best Practices](../../SECURITY_POLICY.md) — Data security for research

---

**Ready to 10x your research velocity?** Install now and deploy your first agent in 15 minutes.

```bash
npm install @skene/skills-directory
```
