Mount Sinai Data Warehouse

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

Announcements

January 5, 2023 – Save the date: Mount Sinai Data Warehouse’s Town Hall will be Friday, April 21, at 12:00 PM. Registration and details coming soon.

December 28, 2022 – Interactive training courses for Leaf and ATLAS are now available in PEAK! “Leaf Application Training: Introduction” provides an overview of Leaf access and functions, and “ATLAS Query Application Introduction Training” navigates step-by-step instructions for beginner ATLAS users.

December 27, 2022 – Leaf and ATLAS will be down for scheduled maintenance on Wednesday, January 11, from 5:00 to 7:00 pm. Click here to read more.

December 1, 2022 – Information on MSDW OMOP Mapping and Data Catalog for OMOP are presented through new resources now available on our Presentations page.

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 moreRequest Access.

TriNetX Tutorial  |  Launch TriNetX

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

CTSA CD2H

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

CTSA Resources | Conduits 

Enterprise Data Catalog

Enterprise Data Catalog (EDC) at Mount Sinai features a collaborative environment to share data and information.

Launch EDC

Tools for OMOP

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

OMOP CDM ToolsOHDSI.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.” 

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