Improve model card and update metadata
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by nielsr HF Staff - opened
README.md
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library_name: tedbench
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tags:
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- protein
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- structure
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- fold-classification
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- tedbench
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pipeline_tag: feature-extraction
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license: bsd-3-clause
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---
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# TEDBench — Pretrained autoencoder (structure only)
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**Variant:** `miae_b` | **Parameters:** 102M | **Layers:** 12 | **Hidden dim:** 768 | **Attn heads:** 12
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This
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autoencoder that masks up to 90% of backbone frames and reconstructs the full
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structure with a lightweight decoder.
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## Architecture sizes
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### Load from the HuggingFace Hub
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```python
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from tedbench.utils.io import load_from_hf
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```bibtex
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@inproceedings{chen2026tedbench,
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title={Protein Fold Classification at Scale: Benchmarking and Pretraining},
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author={Chen, Dexiong and Manolache, Andrei and Niepert, Mathias and Borgwardt, Karsten},
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booktitle={Proceedings of the 43rd International Conference on Machine Learning},
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year={2026}
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}
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```
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---
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library_name: tedbench
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license: bsd-3-clause
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pipeline_tag: graph-ml
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tags:
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- protein
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- structure
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- fold-classification
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- tedbench
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---
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# TEDBench — Pretrained autoencoder (structure only)
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**Variant:** `miae_b` | **Parameters:** 102M | **Layers:** 12 | **Hidden dim:** 768 | **Attn heads:** 12
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This repository contains the **pretrained MiAE-B** (base) checkpoint, a self-supervised model for protein structure representation learning introduced in the paper [Protein Fold Classification at Scale: Benchmarking and Pretraining](https://huggingface.co/papers/2605.18552).
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MiAE (Masked Invariant Autoencoders) is an $\mathrm{SE(3)}$-invariant autoencoder that uses an extremely high masking ratio (up to 90%) of backbone frames to reconstruct full protein structures. It can be used as a feature extractor or as the starting point for fine-tuning on protein fold classification tasks.
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- **Authors:** Dexiong Chen, Andrei Manolache, Mathias Niepert, Karsten Borgwardt
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- **Official Code:** [BorgwardtLab/TEDBench](https://github.com/BorgwardtLab/TEDBench)
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## Architecture sizes
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### Load from the HuggingFace Hub
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Using the `tedbench` library:
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```python
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from tedbench.utils.io import load_from_hf
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```bibtex
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@inproceedings{chen2026tedbench,
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title={Protein Fold Classification at Scale: Benchmarking and Pretraining},
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author={Chen, Dexiong explorer and Manolache, Andrei and Niepert, Mathias and Borgwardt, Karsten},
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booktitle={Proceedings of the 43rd International Conference on Machine Learning (ICML)},
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year={2026}
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}
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```
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