README.md

---
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*