Description
Data Available
To access this data, please log into DSS and submit an application.
Within the application, add this dataset (accession NG00129) 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 ADSP release, containing 170 whole-exomes includes 1) sequencing read alignments in CRAM (compressed BAM) format for the newly sequenced 170 samples, (2) genomic Variant Call Format (gVCF) files generated by GATK4.1.1 on samples.
The pVCF released here is provided as a preview to the formal ADSP quality control that will be released in a few months. Checks of the dataset are ongoing, and the released files may be subject to change in the full quality-controlled release.
Sample Summary per Data Type
Sample Set | Accession | Data Type | Number of Samples |
---|---|---|---|
NCRAD Families WES | snd10039 | WES | 170 |
Available Filesets
Fileset | Accession | Latest Release | Description |
---|---|---|---|
NCRAD Families WES CRAMs and GATK gVCFs | fsa000037 | NG00129.v1 | WES CRAMs and GATK gVCFs. Sequencing Data Quality Control Metrics |
NCRAD Families Phenotype and Manifest Files | fsa000038 | NG00129.v1 | Phenotypes for sequenced subjects and connecting family members |
NCRAD Families WES Project Level VCF | fsa000039 | NG00129.v1 | Preview pVCF |
View the File Manifest for a full list of files released in this dataset.
Subject Information
This dataset includes WES data on 170 sequenced subjects. Phenotype data also includes connecting family data for the sequenced subjects.
Sample Set | Accession | Number of Subjects |
---|---|---|
NCRAD Families WES | snd10039 | 170 |
Data Releases
This release includes whole exome CRAMs, gVCFs, preview pVCFs, and phenotypes for 170 NCRAD Families samples.
NCRAD Families Whole Exome Sequencing (WES) Preview
This ADSP release, containing 170 whole-exomes includes 1) sequencing read alignments in CRAM (compressed BAM) format for the newly sequenced 170 samples, (2) genomic Variant Call Format (gVCF) files generated by GATK4.1.1 on samples.
The pVCF released here is provided as a preview to the formal ADSP quality control that will be released in a few months. Checks of the dataset are ongoing, and the released files may be subject to change in the full quality-controlled release.
Related Studies
Consent Levels
Consent Level | Number of Subjects |
---|---|
GRU-IRB-PUB | 170 |
Visit the Data Use Limitations page for definitions of the consent levels above.
Acknowledgement
Acknowledgment statement for any data distributed by NIAGADS:
Data for this study were prepared, archived, and distributed by the National Institute on Aging Alzheimer’s Disease Data Storage Site (NIAGADS) at the University of Pennsylvania (U24-AG041689), funded by the National Institute on Aging.
Use the study-specific acknowledgement statements below (as applicable):
For investigators using any data from this dataset:
Please cite/reference the use of NIAGADS data by including the accession NG00129.
For investigators using NCRAD Family Study (sa000025) data:
Samples from the National Centralized Repository for Alzheimer’s Disease and Related Dementias (NCRAD), which receives government support under a cooperative agreement grant (U24AG021886) awarded by the National Institute on Aging (NIA), were used in this study. We thank the participants and their families, whose help and participation made this work possible.
For use of data in ng00117: Quality control procedures and data preparation on the GWAS was conducted by the Alzheimer’s Disease Genetics Consortium (ADGC) (UO1AG032984) and the NIA Genetics of Alzheimer’s Disease Storage Site (NIAGADS) (U24-AG041689), both funded by NIA.
For use of data in ng00129: Data processing and quality control procedures on the whole-exome dataset was conducted by the Genome Center for Alzheimer’s Disease (GCAD) (U54AG052427) and the NIA Genetics of Alzheimer’s Disease Storage Site (NIAGADS) (U24-AG041689), both funded by NIA.