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
The sample and data gathered from ATLAS patients represent an unprecedented resource for genetic studies. Therefore, we require that researchers who receive financial support or utilize supported resources or services from the Institute for Precision Health (IPH) acknowledge IPH appropriately.
To this end, we have created the following guidelines for citing IPH. If you need further clarification, please contact IPH Program Manager, Maryam Ariannejad at email@example.com.
1. If researchers used ATLAS biomaterials or accessed the genotypic or phenotypic data, ATLAS and IPH should be acknowledged as follows:
"We gratefully acknowledge the resources provided by the Institute for Precision Health (IPH) and participating ATLAS patients. The ATLAS Community Health Initiative and Biobank (https://www.uclahealth.org/precision-health/atlas), is a program of the IPH, which directs and supports the biobanking and genotyping of biospecimen samples from participating UCLA patients in collaboartion with the David Geffen School of Medicine, UCLA CTSI and UCLA Health."
2. IPH faculty that receive financial support or utilize supported resources or services from the Institute for Precision Health are required to include their IPH affiliation in grants, presentation and other media.
3. Any researcher that publishes a manuscript based on IPH data or resources should forward a link to: Maryam Ariannejad, IPH Program Manager @ firstname.lastname@example.org.
For questions about data security and protection visit The UCLA Health System's Compliance Program.