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lewtun  submitted a paper 19 days ago
Single-minus gluon tree amplitudes are nonzero
lewtun  submitted a paper 20 days ago
Reasoning Cache: Continual Improvement Over Long Horizons via Short-Horizon RL
gagan3012  authored a paper about 2 months ago
From RAG to Agentic RAG for Faithful Islamic Question Answering
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MaziyarPanahi 
posted an update 1 day ago
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1439
DNA, mRNA, proteins, AI. I spent the last year going deep into computational biology as an ML engineer. This is Part I of what I found. 🧬

In 2024, AlphaFold won the Nobel Prize in Chemistry.

By 2026, the open-source community had built alternatives that outperform it.

That's the story I find most interesting about protein AI right now. Not just the science (which is incredible), but the speed at which open-source caught up. Multiple teams, independently, reproduced and then exceeded AlphaFold 3's accuracy with permissive licenses. The field went from prediction to generation: we're not just modeling known proteins anymore, we're designing new ones.

I spent months mapping this landscape for ML engineers. What the architectures actually are (spoiler: transformers and diffusion models), which tools to use for what, and which ones you can actually ship commercially.

New post on the Hugging Face blog: https://huggingface.co/blog/MaziyarPanahi/protein-ai-landscape

Hope you all enjoy! 🤗
MaziyarPanahi 
authored a paper 13 days ago
MaziyarPanahi 
posted an update 22 days ago
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2195
Announcing: OpenMed Multilingual PII Detection Models

Today I am releasing 105 open-source models for Personally Identifiable Information (PII) detection in French, German, and Italian.

All Apache 2.0 licensed. Free for commercial use. No restrictions.

Performance:

- French: 97.97% F1 (top model)
- German: 97.61% F1 (top model)
- Italian: 97.28% F1 (top model)

All top-10 models per language exceed 96% F1

Coverage:

55+ PII entity types per language
Native ID formats: NSS (French), Sozialversicherungsnummer (German), Codice Fiscale (Italian)
Language-specific address, phone, and name patterns

Training Data:

French: 49,580 samples
German: 42,250 samples
Italian: 40,944 samples

Why Multilingual?

European healthcare operates in European languages. Clinical notes, patient records, and medical documents are generated in French, German, Italian, and other languages.

Effective de-identification requires:

- Native language understanding — not translation
- Local ID format recognition — each country has unique patterns
- Cultural context awareness — names, addresses, and formats vary
- These models deliver production-ready accuracy without requiring data to leave your infrastructure or language.

HIPAA & GDPR Compliance
Built for US and European privacy regulations:

- On-premise deployment: Process data locally with zero external dependencies
- Data sovereignty: No API calls, no cloud services, no cross-border transfers
- Air-gapped capable: Deploy in fully isolated environments if required
- Regulatory-grade accuracy: Supporting Expert Determination standards
- HIPAA and GDPR compliance across languages, without compliance gaps.

Use Cases
- Hospital EHR systems: Automated patient record de-identification
- Clinical research: Multilingual dataset preparation for studies
- Insurance companies: Claims processing across

https://huggingface.co/collections/OpenMed/multilingual-pii-and-de-identification
  • 1 reply
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MaziyarPanahi 
posted an update 25 days ago
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1238
From Golden Gate Bridge to Broken JSON: Why Anthropic's SAE Steering Fails for Structured Output

I ran 6 experiments trying to use Anthropic's SAE steering for JSON generation.

- Base model: 86.8% valid JSON
- Steering only: 24.4%
- Fine-tuned: 96.6%
- FSM constrained: 100%

Steering is for semantics, not syntax.

https://huggingface.co/blog/MaziyarPanahi/sae-steering-json
MaziyarPanahi 
posted an update 26 days ago
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3975
🚨 Day 8/8: OpenMed Medical Reasoning Dataset Release - THE GRAND FINALE

Today I complete my 8-day release series with Medical-Reasoning-SFT-Mega.
The largest open medical reasoning dataset, combining 7 state-of-the-art AI models with fair distribution deduplication.

THE 7 SOURCE MODELS (Original Sample Counts):

1. Trinity-Mini: 810,284 samples
2. Qwen3-Next-80B: 604,249 samples
3. GPT-OSS-120B: 506,150 samples
4. Nemotron-Nano-30B: 444,544 samples
5. GLM-4.5-Air: 225,179 samples
6. MiniMax-M2.1: 204,773 samples
7. Baichuan-M3-235B: 124,520 samples

TOTAL BEFORE DEDUPLICATION: 2,919,699 samples

TOKEN COUNTS:
- Content tokens: 2.22 Billion
- Reasoning tokens: 1.56 Billion
- Total tokens: 3.78 Billion
- Samples with chain-of-thought: 100%

Quick Start:
from datasets import load_dataset
ds = load_dataset("OpenMed/Medical-Reasoning-SFT-Mega")


All datasets Apache 2.0 licensed. Free for research and commercial use.

Thank you for following OpenMed's release series. I can't wait to see what you build. 🔥

OpenMed/Medical-Reasoning-SFT-Mega
OpenMed/Medical-Reasoning-SFT-GPT-OSS-120B-V2
OpenMed/Medical-Reasoning-SFT-Trinity-Mini
OpenMed/Medical-Reasoning-SFT-GLM_4.5_Air
OpenMed/Medical-Reasoning-SFT-MiniMax-M2.1
OpenMed/Medical-Reasoning-SFT-Qwen3-Next-80B
OpenMed/Medical-Reasoning-SFT-Nemotron-Nano-30B
https://huggingface.co/datasets/OpenMed/Medical-Reasonin

https://huggingface.co/collections/OpenMed/medical-datasets
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MaziyarPanahi 
posted an update about 2 months ago
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3717
🎉 OpenMed 2025 Year in Review: 6 Months of Open Medical AI

I'm thrilled to share what the OpenMed community has accomplished since our July 2025 launch!

📊 The Numbers

29,700,000 downloads Thank you! 🙏

- 481 total models (475 medical NER models + 6 fine-tuned LLMs)
- 475 medical NER models in [OpenMed](
OpenMed ) organization
- 6 fine-tuned LLMs in [openmed-community](
openmed-community )
- 551,800 PyPI downloads of the [openmed package](https://pypi.org/project/openmed/)
- 707 followers on HuggingFace (you!)
- 97 GitHub stars on the [toolkit repo](https://github.com/maziyarpanahi/openmed)

🏆 Top Models by Downloads

1. [OpenMed-NER-PharmaDetect-SuperClinical-434M]( OpenMed/OpenMed-NER-PharmaDetect-SuperClinical-434M) — 147,305 downloads
2. [OpenMed-NER-ChemicalDetect-ElectraMed-33M]( OpenMed/OpenMed-NER-ChemicalDetect-ElectraMed-33M) — 126,785 downloads
3. [OpenMed-NER-BloodCancerDetect-TinyMed-65M]( OpenMed/OpenMed-NER-BloodCancerDetect-TinyMed-65M) — 126,465 downloads

🔬 Model Categories

Our 481 models cover comprehensive medical domains:

- Disease Detection (~50 variants)
- Pharmaceutical Detection (~50 variants)
- Oncology Detection (~50 variants)
- Genomics/DNA Detection (~80 variants)
- Chemical Detection (~50 variants)
- Species/Organism Detection (~60 variants)
- Protein Detection (~50 variants)
- Pathology Detection (~50 variants)
- Blood Cancer Detection (~30 variants)
- Anatomy Detection (~40 variants)
- Zero-Shot NER (GLiNER-based)


OpenMed
OpenMed NER: Open-Source, Domain-Adapted State-of-the-Art Transformers for Biomedical NER Across 12 Public Datasets (2508.01630)
https://huggingface.co/collections/OpenMed/medical-and-clinical-ner
https://huggingface.co/collections/OpenMed/zeroshot-medical-and-clinical-ner
OpenMed/Medical-Reasoning-SFT-GPT-OSS-120B
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kenobi 
authored 3 papers 3 months ago
Aurelien-Morgan 
posted an update 3 months ago
vumichien 
authored 2 papers 5 months ago
louisbrulenaudet 
posted an update 6 months ago
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6311
Supercharge Apple’s Shortcuts using Cloudflare Workers and Gemini within minutes (and for free, up to 1,500 requests per day) ☁️✨

Hello everyone, last week, while experimenting for fun, I created an API that allows you to easily access AI models (in this case, Google's) from the Shortcut app in order to analyze data from my apps and make the most of it thanks to the generative capabilities of advanced models.

It costs me nothing, and I think it might be good to share it so that others can build on it.

In README.md, you will find everything you need to get started and put your own microservice into production, which you can call from the app’s HTTP request features.

You will simply be asked to have a free Cloudflare account and an API key obtained from Google's AI Studio.

Feel free to take a look and get back to me if you encounter any problems during deployment.

Here is the GitHub repo where you can find all the source code and run it on your own: https://github.com/louisbrulenaudet/genai-api
louisbrulenaudet 
posted an update 6 months ago
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785
Although more and more code editors are aligning themselves with the AGENTS.md file standard, some still use specific nomenclatures that can make it difficult to maintain different configuration files when several people are working on the same project with different agents.

Bodyboard addresses this by generating canonical instructions for code helpers from a single AGENTS.md file, thereby streamlining the production of adapter outputs for Gemini CLI, Copilot, Cline, Claude, Rules, Windsurf, and OpenAI Codex integrations.

You just have to:
npm install -g bodyboard

Then run, at the root of your project:
bodyboard all

Link to npm: https://www.npmjs.com/package/bodyboard
Link to the GitHub repo: https://github.com/louisbrulenaudet/bodyboard

It's a very simple project, but it addresses certain issues I've encountered, so why not make it available to everyone...

If you have other ideas for adapters to create, feel free to open a PR on the GitHub repo.
MaziyarPanahi 
authored a paper 7 months ago
wannaphong 
authored a paper 7 months ago
MaziyarPanahi 
authored a paper 7 months ago
MaziyarPanahi 
posted an update 8 months ago
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13010
🧬 Breaking news in Clinical AI: Introducing the OpenMed NER Model Discovery App on Hugging Face 🔬

OpenMed is back! 🔥 Finding the right biomedical NER model just became as precise as a PCR assay!

I'm thrilled to unveil my comprehensive OpenMed Named Entity Recognition Model Discovery App that puts 384 specialized biomedical AI models at your fingertips.

🎯 Why This Matters in Healthcare AI:
Traditional clinical text mining required hours of manual model evaluation. My Discovery App instantly connects researchers, clinicians, and data scientists with the exact NER models they need for their biomedical entity extraction tasks.

🔬 What You Can Discover:
✅ Pharmacological Models - Extract "chemical compounds", "drug interactions", and "pharmaceutical" entities from clinical notes
✅ Genomics & Proteomics - Identify "DNA sequences", "RNA transcripts", "gene variants", "protein complexes", and "cell lines"
✅ Pathology & Disease Detection - Recognize "pathological formations", "cancer types", and "disease entities" in medical literature
✅ Anatomical Recognition - Map "anatomical systems", "tissue types", "organ structures", and "cellular components"
✅ Clinical Entity Extraction - Detect "organism species", "amino acids", 'protein families", and "multi-tissue structures"

💡 Advanced Features:
🔍 Intelligent Entity Search - Find models by specific biomedical entities (e.g., "Show me models detecting CHEM + DNA + Protein")
🏥 Domain-Specific Filtering - Browse by Oncology, Pharmacology, Genomics, Pathology, Hematology, and more
📊 Model Architecture Insights - Compare BERT, RoBERTa, and DeBERTa implementations
⚡ Real-Time Search - Auto-filtering as you type, no search buttons needed
🎨 Clinical-Grade UI - Beautiful, intuitive interface designed for medical professionals

Ready to revolutionize your biomedical NLP pipeline?

🔗 Try it now: OpenMed/openmed-ner-models
🧬 Built with: Gradio, Transformers, Advanced Entity Mapping
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louisbrulenaudet 
posted an update 8 months ago
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2862
Because hackathons are often the starting point for many AI projects, I've created a Python-backend template incorporating my feedback to streamline collaboration and urgent deployments 🏎️

Within a year, I had the opportunity to participate in hackathons organized by Mistral, OpenAI, and DeepMind and this GitHub template is structured around several fundamental building blocks and recommendations I offer developers eager to participate in their first hackathon, whether as part of a team or individually. Its emphasis is on rapid setup and deployment through:
- uv as a package manager, simplifying usage via a series of pre-configured make commands.
- FastAPI for API management, structured in a modular architecture designed to minimize branch conflicts during merges to main branches (using minimal health-check and ping routes to verify Docker’s proper execution and backend accessibility on the local network).
- Pydantic for validation and type handling, which simplifies debugging and enhances understanding of data objects.
- A set of custom instructions tailored for agents (Cline and GitHub Copilot), aimed at improving overall comprehension of the application and optimizing the vibe-coding experience.

This template includes unit tests with a 100% success rate and test coverage, as well as a minimal CI file ensuring that the FastAPI application runs correctly. Thus, merging code that breaks the server into production becomes impossible ⛔️

In general, I would reiterate an essential piece of advice: your two main adversaries are branch conflicts—particularly when the same file is modified concurrently within a brief period, especially if your architecture isn’t built for scalability—and deployment issues under urgent circumstances ⏱️

Link to GitHub: https://github.com/louisbrulenaudet/hackathon-backend

Simply issue these commands and you can ship your code at the speed of light:
make init
make dev
louisbrulenaudet 
posted an update 9 months ago
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1247
🌐 Clinical Trials Dataset now available on Hugging Face! 🧬

I’ve just released a comprehensive, ML-ready dataset featuring 500,000+ clinical trial records sourced directly from ClinicalTrials.gov for biomedical NLP, healthcare analytics, and clinical research applications 🤗

I wanted to produce the most complete and up-to-date dump with all raw data partially flattened to simplify extraction, self-querying and processing.

Do you have any ideas about what we can do with it? Using descriptions to enhance specialized embedding models?

louisbrulenaudet/clinical-trials