datasets
Training and evaluation data, with the modality, task and licence stated up front. Listed live from the Hugging Face Hub.
cdsm_benchmarking_data
CDSM Collagen Structure Benchmark — Data
Structures and scores for a benchmark comparing a deterministic collagen
triple-helix builder (CDSM) against four co-folding models — Boltz-2, Chai-1,
Protenix and AlphaFold3, the last in both with-MSA (af3_msa) and no-MSA
(af3_nomsa) conditions — on 80 experimentally resolved collagen triple
helices from the RCSB PDB.
Code: https://github.com/bm-howard/cdsm_benchmarking
Layout
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experimental/… See the full description on the dataset page: https://huggingface.co/datasets/CollagenHelixLabs/cdsm_benchmarking_data.oligogym
OligoGym Datasets
A mirror of the 12 curated benchmark datasets shipped with
OligoGym (Roche), repackaged as HuggingFace configs for
convenient loading. Covers oligonucleotide activity, toxicity, and
immunomodulation across ASO, siRNA, and shRNA modalities.
This is not a new dataset. Row counts, column sets, and values are
identical to the files in OligoGym's oligogym/resources/pkg_dataset/.
All credit for curation belongs to the OligoGym authors — please cite them
(see… See the full description on the dataset page: https://huggingface.co/datasets/CollageBio/oligogym.collagen-cdsm_benchmarking_data
CDSM Collagen Structure Benchmark — Data
Structures and scores for a benchmark comparing a deterministic collagen
triple-helix builder (CDSM) against four co-folding models — Boltz-2, Chai-1,
Protenix and AlphaFold3, the last in both with-MSA (af3_msa) and no-MSA
(af3_nomsa) conditions — on 80 experimentally resolved collagen triple
helices from the RCSB PDB.
Code: https://github.com/bm-howard/cdsm_benchmarking
Layout
Prefix
Contents
Size
experimental/… See the full description on the dataset page: https://huggingface.co/datasets/lamm-mit/collagen-cdsm_benchmarking_data.aso-atlas
Citation
This dataset is derived from the ASO Atlas resource introduced in Hill et al. (2025). If you use this dataset, please cite:
@article{hill2025accurately,
title={Accurately modelling RNase H-mediated antisense oligonucleotide efficacy},
author={Hill, Barney and Jaques, Maisie R and Nair, Remya R and Whiffin, Nicola and Wood, Matthew JA and Sanders, Stephan J and Oliver, Peter L and Hill, Alyssa C and Rinaldi, Carlo},
journal={bioRxiv},
pages={2025--10},
year={2025}… See the full description on the dataset page: https://huggingface.co/datasets/CollageBio/aso-atlas.