De-identified clinical and genotype data from ATLAS patients are available for researchers upon request based on the Illumina Global Screening Array. Imputed data may also be available.
Use the Informatics for Integrating Biology & the Bedside (i2b2) Cohort Discovery tool or Discovery Data Repository (DDR) to find out how many of your targeted patients already are participating in Precision Health ATLAS and have been consented or genotyped.
ATLAS DNA samples are genotyped on the Illumina Global Screening Array and microarray genotype data exit the Illumina scanner as binary .gtc files, one file per patient sample. These files are then processed and converted to single VCF and combined Plink files. VCF files are loaded into GenomicDB in the cloud. Combined Plink files are loaded into Discovery Data Repository (DDR) in Azure cloud.
De-identified clinical and genomics data for ATLAS patients can be accessed via the Discovery Data Repository (DDR) in the Azure cloud. Raw plink files are linked to the clinical data by a sample-id. To request access to DDR submit a ticket here.
De-identified genotype data (VCF files), may be accessed in GenomicDB, a repository for genomic data, via Scala (Zeppelin). To access the data, click here to fill out the data/sample request form.
The UCLA Biobank charges UCLA investigators a nominal fee for its services. Please contact Dr. Clara Magyar - email@example.com for more details.
De-identified data are available to researchers at no cost. To access the data, click here to fill out the data/sample request form.
The UCLA Clinical and Translation Science Institue (CTSI) handles all requests for identified data. Click here to request a consult online at intranet.ctsi.ucla.edu.
All requests for DNA samples of ATLAS patients will be sent to the prioritization committee for review. Upon approval, the investigator is contacted by the UCLA Biobank for next steps. Click here to submit a request.
De-identified genotype data are available to UCLA researchers. Click here to submit a request.
Limited (date-shifted) data are available to UCLA researchers upon getting access to Discovery Data Repository (DDR). To request access to DDR submit a ticket here.
All requests for identified data will be reviewed by the CTSI scientific review committee first. Click here to request a consult online at intranet.ctsi.ucla.edu.
The DDR stands for the Discovery Data Repository - built upon a limited data set containing de-identified electronic health record data. It includes a selection of tools (Azure SQL Data Warehouse, Jupyter, Tableau), data sets (clinical data, genomics, waveform, devices and other Internet of Things) and technologies (Azure Platform, Linux, Citrix) to support growing data discovery requirements for UCLA Health Sciences and affiliated researchers across the UCLA campus. To request access to DDR submit a ticket here.
Please send an email to the Program Manager of IPH, Maryam Ariannejad - firstname.lastname@example.org, to start a conversation.
Please see the Institute for Precision Health Facilities document for the grant application language.
Patient Recruitment and Sample Collection for Precision Health Activities at UCLA is an approved study by the UCLA Institutional Review Board (UCLA IRB). IRB#17-001013
We are working on a publication that can be cited. In the meantime, please use the following language: "We gratefully acknowledge the UCLA Precision Health's ATLAS Community Health Initiative (https://www.uclahealth.org/precision-health/atlas), which directs and supports the biobanking and genotyping of the UCLA patients who participated in this study."
For questions about data security and protection visit The UCLA Health System's Compliance Program.