Datasets:

OpenMed
/

pgc-substance-use

CHR int64 1 22 ⌀	SNP stringlengths 3 11	BP int64 8.55k 249M ⌀	A1 stringclasses 4 values	A2 stringclasses 4 values	OR float64 0.74 1.25 ⌀	P float64 0 1	N int64 92.6k 92.6k ⌀	_source_file stringclasses 2 values
4	rs10000015	84,143,987	G	A	0.979	0.27727	92,630	Hatoum2023AddictionAfrican.txt.gz
3	rs1000002	183,635,768	T	C	0.981	0.364765	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000022	115,130,850	T	A	0.979	0.709102	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000059	10,722,339	C	A	1.023	0.69679	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000074	40,002,696	T	C	0.978	0.137014	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000082	167,310,192	T	C	1.008	0.957929	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000101	171,716,087	C	A	0.984	0.173554	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000104	10,191,766	G	A	1.012	0.931157	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000109	91,367,269	T	A	1.019	0.588589	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000111	106,918,068	A	G	1.054	0.203365	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000113	180,984,096	G	C	1.062	0.538439	92,630	Hatoum2023AddictionAfrican.txt.gz
9	rs1000012	135,703,041	C	A	0.986	0.806097	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000125	60,567,876	T	C	0.969	0.390676	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000130	76,939,335	T	C	0.99	0.508771	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000135	71,595,140	T	A	0.988	0.739491	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000137	156,102,176	T	G	0.99	0.63349	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000149	121,319,550	T	A	0.965	0.733261	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000150	32,039,123	A	G	0.984	0.789556	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000160	69,033,099	A	G	1.023	0.737449	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000166	188,999,900	T	C	1.014	0.199073	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000171	188,611,288	T	A	0.993	0.87367	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000176	107,374,211	A	G	1.02	0.252784	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000206	9,611,952	C	T	1.013	0.686015	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000207	139,529,133	C	T	0.988	0.755334	92,630	Hatoum2023AddictionAfrican.txt.gz
13	rs1000022	100,461,219	C	T	0.974	0.415648	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000230	120,261,439	C	T	1.016	0.95563	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000237	22,145,261	C	G	1.014	0.629153	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000243	29,768,986	T	C	0.968	0.555086	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000245	112,571,047	G	A	1.012	0.382957	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000246	102,322,960	A	G	0.982	0.035572	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000254	178,417,106	A	G	0.985	0.7222	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000264	6,607,171	A	G	1.043	0.056068	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000272	189,690,383	C	T	0.987	0.31583	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000286	32,037,931	G	A	1.031	0.072808	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000288	48,357,527	G	A	1.011	0.538539	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000302	42,530,746	T	C	1.058	0.131092	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000305	184,245,682	A	G	0.969	0.024717	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000309	58,752,599	G	T	1.011	0.447473	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000311	53,507,945	C	T	0.959	0.112502	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000331	43,442,236	G	A	1.02	0.043204	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000351	22,145,385	A	G	1.014	0.612967	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000360	178,417,192	T	G	0.985	0.718659	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000379	173,695,104	C	G	1.009	0.504508	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000389	59,631,105	C	G	0.986	0.7193	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000397	4,447,064	T	C	1.007	0.931918	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000399	11,597,466	C	G	1.024	0.473642	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000413	43,539,670	G	C	1.022	0.433657	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000417	172,283,260	G	A	1.019	0.782894	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000424	123,444,256	T	C	1.009	0.929161	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000425	150,249,741	T	C	0.962	0.855158	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000427	135,274,980	T	C	1.009	0.985777	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000430	126,572,136	T	C	0.983	0.548461	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000433	6,960,801	A	G	0.985	0.513271	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000461	56,978,379	T	C	0.992	0.974443	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000465	120,835,814	A	G	0.982	0.232725	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000470	21,781,155	G	A	0.984	0.385228	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000473	178,417,317	C	G	0.985	0.688962	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000476	173,119,263	C	A	1.01	0.906775	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000491	151,529,275	G	A	1.012	0.156419	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000499	179,815,215	G	A	1.013	0.390078	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000505	28,482,812	G	A	1.028	0.462137	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000518	11,504,491	A	G	0.981	0.031456	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000521	126,459,422	T	C	0.981	0.436344	92,630	Hatoum2023AddictionAfrican.txt.gz
2	rs1000053	12,790,328	T	C	0.985	0.295265	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000534	190,343,380	T	C	1.01	0.603313	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000544	120,270,705	A	G	0.991	0.629327	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000551	28,274,979	T	A	0.972	0.69238	92,630	Hatoum2023AddictionAfrican.txt.gz
5	rs1000056	94,322,982	C	T	0.988	0.250219	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000565	173,660,383	G	A	1.009	0.649518	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000568	47,047,985	G	A	0.981	0.566122	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000572	24,706,793	T	C	0.982	0.428923	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000573	99,048,785	C	G	1.008	0.912932	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000575	44,934,229	G	T	0.992	0.830448	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000577	126,572,133	A	G	0.983	0.548461	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000579	138,401,809	G	A	0.986	0.321054	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000580	5,166,703	C	G	1.018	0.335953	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000585	171,600,214	T	C	1.013	0.296105	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000588	138,401,844	G	A	0.987	0.386918	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000589	173,695,375	A	G	1.01	0.487742	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000595	53,646,007	A	C	0.984	0.639649	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000597	10,132,105	A	G	1.021	0.575378	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000607	173,628,125	G	A	0.985	0.553897	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000608	154,638,085	T	C	1.026	0.471832	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000609	25,816,048	A	G	1.027	0.012801	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000620	113,203,204	A	G	0.986	0.341254	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000625	19,401,033	C	T	0.979	0.420384	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000642	93,057,077	C	T	1.031	0.509011	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000643	117,450,237	C	A	0.968	0.219947	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000644	116,400,995	G	C	0.988	0.150919	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000650	134,318,904	T	A	1.014	0.829152	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000652	64,910,970	A	T	1.014	0.806677	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000655	151,529,470	C	G	1.009	0.610546	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000658	29,498,521	A	G	1.024	0.359676	92,630	Hatoum2023AddictionAfrican.txt.gz
6	rs1000066	128,239,412	A	C	0.966	0.135799	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000660	78,268,196	G	A	1.023	0.051627	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000671	97,542,014	C	T	1.027	0.640164	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000678	20,249,400	C	T	1.014	0.899646	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000683	134,474,233	T	C	1.03	0.029157	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000685	76,168,294	T	G	0.991	0.721714	92,630	Hatoum2023AddictionAfrican.txt.gz
4	rs10000700	113,203,271	A	G	0.988	0.389951	92,630	Hatoum2023AddictionAfrican.txt.gz

End of preview. Expand in Data Studio

PGC Substance Use Disorders — GWAS Summary Statistics

Dataset Description

Genome-wide association study (GWAS) summary statistics for Substance Use Disorders phenotypes from the Psychiatric Genomics Consortium (PGC).

This dataset contains multiple GWAS publications as separate subsets (configs). Each can be loaded independently.

Usage

from datasets import load_dataset

# Load a specific GWAS (e.g., SUD2023)
ds = load_dataset("OpenMed/pgc-substance-use", "SUD2023")
print(ds)

Available Configs

from datasets import get_dataset_config_names
configs = get_dataset_config_names("OpenMed/pgc-substance-use")
print(configs)

Subsets (Publications)

Config	Phenotype	Journal	Year	PubMed	Rows	License
`SUD2023`	Substance Use Disorder	Nature Mental Health	2023	37250466	5,736,488	CC BY 4.0
`sud2018-alc`	Alcohol Dependence	Nature Neuroscience	2018	30482948	—	CC BY 4.0
`sud2019-alcuse`	Alcohol Use / AUDIT	American Journal of Psychiatry	2019	30336701	—	CC BY 4.0
`sud2020-cud`	Cannabis Use Disorder	Lancet Psychiatry	2020	33096046	—	CC BY 4.0
`sud2020-op`	Opioid Dependence	Molecular Psychiatry	2020	32099098	57,445,238	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:

The original publication (see PubMed links above)
The data DOI from Figshare (see supplementary metadata)
Acknowledge the PGC:

"Data were obtained from the Psychiatric Genomics Consortium — https://pgc.unc.edu/"