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  # TraitGym + 8,192 bp pre-extracted windows
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- This dataset is a **convenience repackaging** of [`songlab/TraitGym`](https://huggingface.co/datasets/songlab/TraitGym) (Benegas, Eraslan & Song, bioRxiv 2025.02.11.637758), with one extra step done offline: for every variant we pre-extract the 8,192 bp window centered on the variant from the hg38 reference, plus the same window with the alt allele substituted. This avoids loading and querying the human genome at eval time when running zero-shot DNA-LM scoring through `brca_eval.py`-style pipelines.
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- The variants, labels and matched controls are **identical** to the original `songlab/TraitGym` `_matched_9` configs. We add only the `ref_seq` and `var_seq` columns. Cite the original paper for any use of this benchmark.
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  ## Configs
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  - **`mendelian_traits`** (n = 3,380): 338 putative-causal non-coding variants from 113 monogenic Mendelian diseases (curated from OMIM), matched 9:1 against gnomAD common-variant controls on chromosome × consequence × TSS-distance.
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  - **`complex_traits`** (n = 11,400): 1,140 putative-causal non-coding variants from 83 polygenic UK BioBank traits (PIP > 0.9 from statistical fine-mapping), matched 9:1 against PIP < 0.01 controls on chromosome × consequence × TSS-distance × MAF × LD score.
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- Source datasets:
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- - [`songlab/TraitGym/mendelian_traits_matched_9`](https://huggingface.co/datasets/songlab/TraitGym)
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- - [`songlab/TraitGym/complex_traits_matched_9`](https://huggingface.co/datasets/songlab/TraitGym)
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  ## Schema
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  | column | description |
 
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  # TraitGym + 8,192 bp pre-extracted windows
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+ This dataset is a **repackaging** of [`songlab/TraitGym`](https://huggingface.co/datasets/songlab/TraitGym) (Benegas, Eraslan & Song, bioRxiv 2025.02.11.637758), with one extra step: for every variant we pre-extract the 8,192 bp window centered on the variant from the hg38 reference, plus the same window with the alt allele substituted.
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+ The variants, labels and matched controls are **identical** to the original `songlab/TraitGym` `_matched_9` configs.
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  ## Configs
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  - **`mendelian_traits`** (n = 3,380): 338 putative-causal non-coding variants from 113 monogenic Mendelian diseases (curated from OMIM), matched 9:1 against gnomAD common-variant controls on chromosome × consequence × TSS-distance.
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  - **`complex_traits`** (n = 11,400): 1,140 putative-causal non-coding variants from 83 polygenic UK BioBank traits (PIP > 0.9 from statistical fine-mapping), matched 9:1 against PIP < 0.01 controls on chromosome × consequence × TSS-distance × MAF × LD score.
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  ## Schema
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  | column | description |