Summary statistics for Kishore, Sreelatha, Tenghe et al. GWAS for Parkinson's Disease in India

GWAS summary statistics for Kishore, Sreelatha, Tenghe et al. “Deciphering the Genetic Architecture of Parkinson’s Disease in India”

Genomic Coordinates: GRCh38

Study Type: Case-Control

Datasets Included

Indian PD GWAS Summary Statistics

File Name: PD_GWAS_India_4806Cases_6364Controls_Summary_Statistics.tsv.gz

Description: This file contains the GWAS summary statistics derived from 4,806 Parkinson’s disease cases and 6,364 controls from the Indian population. Contains a total of 8,414,146 biallelic SNPs.

File Description

Columns:

CHR: Chromosome number

POS: Base pair position

SNP: SNP identifier (rsID)

A1: Effect allele

A2: Alternate allele

EAF: Effect allele frequency 

BETA: Effect size for the effect allele

SE: Standard error of the effect size

P: P-value for association

Methods:

GWAS conducted using logistic generalized linear models (GLM) implemented in PLINK

Quality control included filtering for MAF > 0.01,  HWE p-value > 1e-8, and INFO score > 0.3

     2. Meta-Analysis Summary Statistics

File Name: PD_Meta_Analysis_India_MultiEthnic_Summary_Statistics.tsv.gz

Description: This file contains the results of a meta-analysis combining summary statistics from the Indian GWAS and a multi-ethnic GWAS. Contains a total of 7,097,037 biallelic SNPs.

Studies Included:

Kim et al.: Multi-ancestry GWAS meta-analysis of Parkinson’s Disease (611,485 individuals)

Kishore, Sreelatha, Tenghe et al.: Indian GWAS of Parkinson’s Disease (11,170 individuals)

File Description

Columns:

CHR: Chromosome number

POS: Base pair position

SNP: SNP identifier (rsID)

A1: Effect allele

A2: Alternate allele

META_BETA: Meta-analyzed effect size for the effect allele

META_SE: Standard error of the meta-analyzed effect size

META_P: P-value for the meta-analysis

I2: Heterogeneity index across studies

N_STUDIES: Number of studies  

EFFECTS:  Summary of effect directions 

Methods:

Meta-analysis conducted using GWAMA software with fixed-effects model

Heterogeneity statistics (I2) calculated to evaluate population differences

Populations

Indian PD GWAS: Includes individuals of Indian ancestry

Meta-Analysis: Combines Indian GWAS results with a multi-ethnic GWAS summary statistics dataset