Mount Sinai Data Warehouse

Partnering with researchers and clinicians to effectively utilize Mount Sinai Health System data for translational and clinical research

Announcements

 
 
October, 2024 – Scientific Computing and Data is pleased to announce that all current and historic patient home addresses recorded in Epic have been geocoded using the Decentralized Geomarker Assessment for Multi-Site Studies (DeGAUSS) application and are now stored in the Mount Sinai Data Warehouse (MSDW). Access to this new data source at the patient-level will only be available to researchers, who have a relevant IRB approved protocol, via a MSDW custom data request. If you have any questions about accessing these new data sources, please contact the MSDW team (MSDW support).
 
 
October, 2024 – Introduction to TriNetX Clinical Query Tool – Wednesday, October 9, 3 pm – 4 pm, Click here to register for the Introduction to TriNetX training session on Zoom (Zoom link is provided following registration.)
 
 
October, 2024 – Introduction to Leaf & ATLAS – Thursday, October 10, 1 pm – 2 pm, Click here to register for Introduction to Leaf & ATLAS Session on Zoom (Zoom link is provided following registration.)
 

May, 2024 – As of May 9, 2024, the MSDW chargeback rate is $236 per hour. For any questions, please reach out to ranjini.kottaiyan@mssm.edu.

April, 2024 – Training: Leveraging Epic for Research – Tuesday, May 14, 2024 1 pm – 2 pm
This training will cover: an overview of Epic’s Research Module; Epic Research features and workflows; and upcoming features
Presented by: Joseph Kannry, MD, Lead Technical Informaticist, Professor of Medicine, Professor of Pathology, and Sharon Nirenberg, MD, Lead Physician Informaticist, Scientific Computing and Data, Icahn School of Medicine at Mount Sinai.

 

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OMOP Query Tools

Which tool should I use?

Leaf

A web-based query tool that creates patient cohorts from de-identified data using clinical and demographic criteria. Log in with your Mount Sinai credentials.

Resources and Info  |  Launch Leaf 

ATLAS

A web-based query tool that analyzes data standardized in the OMOP CDM format. Mount Sinai users must have a school account for access.

Resources and Info  |  Launch ATLAS

TriNetX

A web-based query tool that queries de-identified Epic data, including demographics, diagnoses, lab results and more. Request Access.

TriNetX Tutorial  |  Launch TriNetX

Data Sets

Which data set should I use?

COVID-19 Data Sets

The de-identified COVID-19 data sets include all patients at a Mount Sinai facility who have been screened for or diagnosed with COVID. 

Resources and Info | Download Data

Custom Data Request

The MSDW team will work with you to create a custom de-identified or PHI data set for your research or quality improvement project. 

Resources and Info | Data Set Request Form

OMOP Data Marts

MSDW supports continually refreshed OMOP-formatted data marts of your research projects’ patient cohorts of interest.

Resources and Info | Request Access

Services

Which service is right for me?

CTSA CD2H

CTSA National Center for Data to Health (CD2H) provides additional resources to the community.

CTSA Resources | Conduits 

Tools for OMOP

Open source software tools can be used with MSDW’s Observational Medical Outcomes Partnership (OMOP) Common Data Model.

OMOP CDM Tools |  OHDSI.org

Acknowledge Mount Sinai in Your Work

All publications must include the following language in the acknowledgments section: “This work was supported in part through the Mount Sinai Data Warehouse (MSDW) resources and staff expertise provided by Scientific Computing and Data at the Icahn School of Medicine at Mount Sinai.” 

See Data Use Agreement

Supported by grant UL1TR004419 from the National Center for Advancing Translational Sciences, National Institutes of Health.