| --- |
| title: MCP Res |
| emoji: 📊 |
| colorFrom: red |
| colorTo: gray |
| sdk: docker |
| sdk_version: 1.46.0 |
| app_file: app.py |
| pinned: false |
| short_description: Research |
| --- |
| |
| MedGenesis AI 🧬 |
| Unified Biomedical Research Assistant—AI, Literature, Safety & Knowledge Graphs |
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| 🚀 Overview |
| MedGenesis AI is the next-generation biomedical research assistant that unifies PubMed, arXiv, UMLS, OpenFDA, and advanced AI (OpenAI GPT-4o) into one seamless platform. |
| Discover, synthesize, and visualize research, drugs, concepts, and safety—all in a single app. |
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| Semantic search across top biomedical databases |
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| UMLS concept mapping and standardization |
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| Drug safety insights powered by OpenFDA |
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| AI-powered summaries and follow-up Q&A |
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| Interactive knowledge graph for instant relationship exploration |
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| Export results as PDF or CSV |
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| Workspace to save and revisit your research sessions |
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| ✨ Key Features |
| Unified Search: Find and aggregate results from PubMed and arXiv, ranked by semantic similarity. |
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| Biomedical Concept Augmentation: Map results to UMLS concepts for standardized knowledge. |
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| Drug & Safety Insights: Connect literature with latest FDA safety data. |
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| AI-Powered Synthesis: Summarize, answer questions, and suggest next research steps using GPT-4o. |
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| Knowledge Graph: Visual, interactive network of papers, drugs, and concepts. |
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| Export & Workspace: Download data, save sessions, and organize your findings. |
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| 🖥️ Live Demo |
| Try the app on Hugging Face Spaces |
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| 🐳 Docker-Based Deployment |
| MedGenesis AI uses a Dockerfile for guaranteed reproducibility and robust dependency management. |
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| Run Locally: |
| bash |
| Copy code |
| git clone https://huggingface.co/spaces/MCP_Res |
| cd YOUR_REPO |
| docker build -t medgenesis-ai . |
| docker run -p 7860:7860 medgenesis-ai |
| Then open http://localhost:7860 in your browser. |
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| On Hugging Face Spaces: |
| Make sure your Dockerfile, requirements.txt, and app.py are present in your repo root. |
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| Push all code to your Space. |
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| In the Space settings, select "Docker" as the runtime. |
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| Your Space will build and launch automatically. |
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| ⚡ Quick Start (Streamlit UI) |
| Enter a biomedical research question. |
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| Click Run Search to query all sources. |
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| Explore: |
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| Results: Detailed, AI-synthesized findings. |
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| Knowledge Graph: Interactive visualization. |
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| Visualizations: Year histogram and more. |
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| Download results or save to your workspace. |
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| Ask follow-up questions with the integrated AI assistant. |
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| 🛠️ Customization |
| Add new data sources by extending mcp/ utilities. |
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| Update color/theme in .streamlit/config.toml. |
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| Want to run in SDK mode? Simply remove the Dockerfile and deploy with requirements.txt as usual. |
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| Use the built-in workspace to organize your research projects. |
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| 🤝 Contributing |
| Pull requests, bug reports, and feature suggestions are welcome! |
| For large features, open an issue first to discuss your ideas. |
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| 🧑💻 Author |
| Oluwafemi Idiakhoa |
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| 📝 License |
| MIT License |
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| ❤️ Acknowledgments |
| Hugging Face Spaces |
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| PubMed, arXiv, OpenFDA, UMLS |
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| OpenAI GPT-4o |
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| The open-source biomedical AI community |
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| 🔗 Links |
| MedGenesis AI Space |
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| OpenFDA |
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| UMLS |
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| arXiv |
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| PubMed |
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| Note on Docker |
| If you’re using Docker, all dependencies (including Jinja2, pyvis) are installed as specified in the Dockerfile and requirements.txt—no extra setup needed. |
| If deploying with Hugging Face SDK mode, ensure your requirements.txt matches your dependencies. |
