Overview
To access the dataset, please log into DSS and submit an application.
Within the application, add this dataset (accession NG00171) in the “Choose a Dataset” section.
Once approved, you will be able to log in and access the data within the DARM portal.
Description
This dataset includes summary statistics characterizing genetic population structure of individuals in the LASI-DAD cohort. This includes estimates of population admixture and founder events, including segments of Neanderthal and Denisovan ancestry and regions of homozygosity in India. We used the whole genome sequences for 2,762 individuals part of the LASI-DAD sample set snd10033. Of the total sample pool, 2,679 samples passed quality control filters. For these individuals, we provide information about sequencing depth for each individual, ancestry proportions measured using population genetics tool – qpAdm, runs of homozygosity inferred using PLINK and estimates of Neanderthal and Denisovan ancestry based on hmmix. Details of the analysis and methods are described in the biorxiv preprint (bioRxiv 2024.02.15.580575, doi: https://doi.org/10.1101/2024.02.15.580575)
To obtain subject ID mapping between LASI-DAD datasets, please contact Jinkook Lee (jinkookl@usc.edu) or apply for data access on the LASI-DAD website.
Sample Summary per Data Type
Sample Set | Accession | Data Type | Number of Samples |
---|---|---|---|
Population Structure in LASI-DAD | snd10117 | Population Structure Summary Statistics | 2,712 |
Available Filesets
Name | Accession | Latest Release | Description |
---|---|---|---|
LASI-DAD Population Structure | fsa000126 | NG00171 | Population Structure Summary Statistics |
View the File Manifest for a full list of files released in this dataset.