Duplicate from introvoyz041/pgc-mdd

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

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+*.pcm filter=lfs diff=lfs merge=lfs -text
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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
+- mdd
+- mental-health
+- genetics
+- genomics
+- biology
+- health
+- bioinformatics
+pretty_name: PGC Major Depressive Disorder GWAS Summary Statistics
+size_categories:
+- 1M-10M
+configs:
+- config_name: AntiDepResponse2021
+  default: true
+  data_files:
+  - split: train
+    path: data/AntiDepResponse2021/*.parquet
+- config_name: mdd2013
+  data_files:
+  - split: train
+    path: data/mdd2013/*.parquet
+- config_name: mdd2018
+  data_files:
+  - split: train
+    path: data/mdd2018/*.parquet
+- config_name: mdd2018_noUKBB
+  data_files:
+  - split: train
+    path: data/mdd2018_noUKBB/*.parquet
+- config_name: mdd2021asi
+  data_files:
+  - split: train
+    path: data/mdd2021asi/*.parquet
+- config_name: mdd2023diverse
+  data_files:
+  - split: train
+    path: data/mdd2023diverse/*.parquet
+- config_name: mdd2024symptoms
+  data_files:
+  - split: train
+    path: mdd2024symptoms/train-*
+- config_name: mdd2025
+  data_files:
+  - split: train
+    path: data/mdd2025/*.parquet
+- config_name: ppd2023
+  data_files:
+  - split: train
+    path: data/ppd2023/*.parquet
+language:
+- en
+source_datasets:
+- pgc
+dataset_info:
+  config_name: mdd2024symptoms
+  features:
+  - name: '##fileFormat=PGCv1.0'
+    dtype: string
+  - name: _source_file
+    dtype: string
+  splits:
+  - name: train
+    num_bytes: 106084
+    num_examples: 1104
+  download_size: 11546
+  dataset_size: 106084
+---
+
+# PGC Major Depressive Disorder — 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 **Major Depressive Disorder** phenotypes from the [Psychiatric Genomics Consortium (PGC)](https://pgc.unc.edu/).
+
+Each publication is available as a separate subset (config) and can be loaded independently.
+
+## Usage
+
+```python
+from datasets import load_dataset
+
+# Load a specific GWAS
+ds = load_dataset("OpenMed/pgc-mdd", "AntiDepResponse2021")
+print(ds)
+```
+
+### List all available subsets
+
+```python
+from datasets import get_dataset_config_names
+print(get_dataset_config_names("OpenMed/pgc-mdd"))
+```
+
+## Subsets
+
+| Config | Phenotype | Journal | Year | PubMed |
+|--------|-----------|---------|------|--------|
+| `AntiDepResponse2021` | Antidepressant Response | Biol Psychiatry: Global Open Science | 2021 | Pending |
+| `mdd2013` | Major Depression | Molecular Psychiatry | 2013 | [22472876](https://pubmed.ncbi.nlm.nih.gov/22472876/) |
+| `mdd2018` | Major Depression | Nature Genetics | 2018 | [29700475](https://pubmed.ncbi.nlm.nih.gov/29700475/) |
+| `mdd2018_noUKBB` | Major Depression (no UK Biobank) | Nature Genetics | 2018 | [29700475](https://pubmed.ncbi.nlm.nih.gov/29700475/) |
+| `mdd2021asi` | Major Depression (East Asian) | JAMA Psychiatry | 2021 | [34586374](https://pubmed.ncbi.nlm.nih.gov/34586374/) |
+| `mdd2023diverse` | Major Depression (Multi-Ancestry) | Nature Genetics | 2023 | [38177345](https://pubmed.ncbi.nlm.nih.gov/38177345/) |
+| `mdd2025` | Major Depression | Cell | 2025 | [39814019](https://pubmed.ncbi.nlm.nih.gov/39814019/) |
+| `ppd2023` | Peripartum Depression | American Journal of Psychiatry | 2023 | [37849304](https://pubmed.ncbi.nlm.nih.gov/37849304/) |
+
+## Data Format
+
+All data is stored as **Apache Parquet** shards (10,000 rows each). Common columns:
+
+| Column | Description |
+|--------|-------------|
+| `SNP` / `ID` | SNP rsID or variant identifier |
+| `CHR` | Chromosome |
+| `BP` / `POS` | Base-pair position (typically GRCh37/hg19) |
+| `A1` | Effect allele |
+| `A2` | Non-effect allele |
+| `OR` / `BETA` | Odds ratio or effect size |
+| `SE` | Standard error |
+| `P` | P-value |
+| `_source_file` | Original source filename |
+
+> Column names vary between publications. Check each subset's schema.
+
+## Citation
+
+Please cite the original publication (see PubMed links above) and acknowledge the PGC:
+
+> Data were obtained from the Psychiatric Genomics Consortium — https://pgc.unc.edu/
+
+## Terms of Use
+
+Released under **[CC BY 4.0](https://creativecommons.org/licenses/by/4.0/)** / **[CC0 1.0](https://creativecommons.org/publicdomain/zero/1.0/)**.
+
+- Cite the original publication(s)
+- Do not attempt to re-identify individual participants
+- Comply with the PGC [data use policies](https://pgc.unc.edu/for-researchers/data-access/)
+
+## Source
+
+- [Psychiatric Genomics Consortium (PGC)](https://pgc.unc.edu/)
+- [PGC Downloads](https://pgc.unc.edu/for-researchers/download-results/)
+
+---
+
+*Last updated: April 2026*

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