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Update longevitymap module

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README.md CHANGED
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- ---
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- license: mit
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- ---
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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+ ---
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+ license: mit
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+ tags:
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+ - biology
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+ - genetics
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+ - genomics
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+ - variants
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+ - annotation
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+ - longevity
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+ - pharmacogenomics
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+ language:
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+ - en
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+ size_categories:
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+ - 1K<n<10K
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+ ---
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+
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+ # Genomic Variant Annotators
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+
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+ Curated genomic variant annotation modules from the [DNA-seq](https://github.com/dna-seq) project.
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+
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+ ## Overview
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+
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+ This dataset contains pre-computed annotation data for genetic variants, organized by module:
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+
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+ | Module | Description | Files |
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+ |--------|-------------|-------|
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+ | longevitymap | Longevity-associated variants | annotations.parquet, studies.parquet, weights.parquet |
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+
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+ ## Schema
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+
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+ ### annotations.parquet
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+ Variant-level facts linking rsIDs to genes and phenotypes.
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+ - `rsid`: dbSNP reference ID
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+ - `module`: Source module name
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+ - `gene`: Associated gene symbol
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+ - `phenotype`: Associated phenotype/trait
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+ - `category`: Functional category
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+
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+ ### studies.parquet
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+ Per-study evidence from scientific publications.
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+ - `rsid`: dbSNP reference ID
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+ - `module`: Source module name
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+ - `pmid`: PubMed ID
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+ - `population`: Study population
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+ - `p_value`: Statistical significance
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+ - `conclusion`: Study conclusion
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+ - `study_design`: Type of study
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+
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+ ### weights.parquet
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+ Curator-defined scoring for variant impact.
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+ - `rsid`: dbSNP reference ID
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+ - `genotype`: Genotype as list[str] (e.g., ["C", "T"])
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+ - `module`: Source module name
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+ - `weight`: Numeric weight
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+ - `state`: "protective", "risk", or "neutral"
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+ - `priority`: Priority level
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+ - `conclusion`: Curator conclusion
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+ - `curator`: Curator name
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+ - `method`: Curation method
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+
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+ ## Usage
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+
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+ ```python
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+ import polars as pl
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+
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+ # Load from HuggingFace
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+ weights = pl.read_parquet("hf://datasets/just-dna-seq/annotators/data/longevitymap/weights.parquet")
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+ studies = pl.read_parquet("hf://datasets/just-dna-seq/annotators/data/longevitymap/studies.parquet")
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+ annotations = pl.read_parquet("hf://datasets/just-dna-seq/annotators/data/longevitymap/annotations.parquet")
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+ ```
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+
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+ ## Statistics
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+
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+ - **Modules**: 1 (longevitymap)
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+ - **Total files**: 3
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+ - **Total size**: 0.10 MB
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+
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+ ## License
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+
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+ MIT License - See [LICENSE](LICENSE) for details.
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+
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+ ## Citation
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+
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+ If you use this data, please cite the original sources:
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+ - LongevityMap: [https://longevitymap.org/](https://longevitymap.org/)
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