Duplicate from introvoyz041/pgc-other

Co-authored-by: Bri Parales <introvoyz041@users.noreply.huggingface.co>

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README.md

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+---
+license: cc-by-4.0
+task_categories:
+- tabular-regression
+- tabular-classification
+tags:
+- gwas
+- summary-statistics
+- psychiatric-genomics
+- pgc
+- other
+- mental-health
+- genetics
+- genomics
+- biology
+- health
+- bioinformatics
+pretty_name: PGC Other Psychiatric Conditions GWAS Summary Statistics
+size_categories:
+- 1M-10M
+configs:
+- config_name: bpd2025
+  default: true
+  data_files:
+  - split: train
+    path: data/bpd2025/*.parquet
+- config_name: ciac
+  data_files:
+  - split: train
+    path: data/ciac/*.parquet
+language:
+- en
+source_datasets:
+- pgc
+---
+
+# PGC Other Psychiatric Conditions — GWAS Summary Statistics
+
+[![License: CC BY 4.0](https://img.shields.io/badge/License-CC_BY_4.0-lightgrey)](https://creativecommons.org/licenses/by/4.0/)
+
+## Dataset Description
+
+Genome-wide association study (GWAS) summary statistics for **Other Psychiatric Conditions** phenotypes from the [Psychiatric Genomics Consortium (PGC)](https://pgc.unc.edu/).
+
+This dataset contains multiple GWAS publications as separate subsets (configs). Each can be loaded independently.
+
+## Usage
+
+```python
+from datasets import load_dataset
+
+# Load a specific GWAS (e.g., bpd2025)
+ds = load_dataset("OpenMed/pgc-other", "bpd2025")
+print(ds)
+```
+
+### Available Configs
+
+```python
+from datasets import get_dataset_config_names
+configs = get_dataset_config_names("OpenMed/pgc-other")
+print(configs)
+```
+
+## Subsets (Publications)
+
+| Config | Phenotype | Journal | Year | PubMed | Rows | License |
+|--------|-----------|---------|------|--------|------|---------|
+| `bpd2025` | Borderline Personality Disorder | Nature Genetics | 2025 | Pending | 30,901,961 | CC BY 4.0 |
+| `ciac` | Clozapine-Induced Agranulocytosis | Nature Communications | 2014 | [25187353](https://pubmed.ncbi.nlm.nih.gov/25187353/) | — | CC BY 4.0 |
+
+## Data Format
+
+All data has been converted to **Apache Parquet** format with shards of 10,000 rows. Common columns include:
+
+| Column | Description |
+|--------|-------------|
+| `SNP` / `ID` | SNP rsID or variant identifier |
+| `CHR` | Chromosome |
+| `BP` / `POS` | Base-pair position (typically GRCh37/hg19) |
+| `A1` / `ALT` | Effect allele |
+| `A2` / `REF` | Non-effect (reference) allele |
+| `OR` / `BETA` | Odds ratio or effect size |
+| `SE` | Standard error |
+| `P` | P-value |
+| `INFO` | Imputation quality score |
+| `FRQ` / `MAF` | Allele frequency |
+| `_source_file` | Original source filename |
+
+> **Note:** Column names vary between publications. The `_source_file` column tracks the original file each row came from.
+
+## Citation
+
+When using any subset, please cite:
+
+1. The **original publication** (see PubMed links above)
+2. The **data DOI** from Figshare (see supplementary metadata)
+3. **Acknowledge the PGC:**
+   > "Data were obtained from the Psychiatric Genomics Consortium — https://pgc.unc.edu/"
+
+## Terms of Use
+
+This dataset is released under the **[CC BY 4.0](https://creativecommons.org/licenses/by/4.0/)** license.
+
+By using PGC summary statistics you agree to:
+
+1. Cite the original publication(s)
+2. Not attempt to re-identify individual participants
+3. Comply with the PGC's [data use policies](https://pgc.unc.edu/for-researchers/data-access/)
+
+## Source
+
+- **Consortium:** [Psychiatric Genomics Consortium (PGC)](https://pgc.unc.edu/)
+- **PGC Downloads:** [pgc.unc.edu/for-researchers/download-results/](https://pgc.unc.edu/for-researchers/download-results/)
+
+---
+
+*Last updated: April 2026*

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