ALERT! Missing OMOP records from Epic upgrade bug in November 2024<\/span><\/strong><\/h2>\nMount Sinai’s Epic team upgrades the Epic EHR several times per year. \u00a0There was a bug during the upgrade in November 2024 that caused records to be deleted. \u00a0Fortunately, the Mount Sinai Million team discovered the missing data in early January of this year. Since then, the team have worked to “undelete” the missing records in the following OMOP tables.<\/span><\/div>\n\u00a0<\/div>\n1.visit_occurrence<\/span><\/pre>\n2.measurement<\/span><\/pre>\n3.condition_occurrence<\/span><\/pre>\n4.procedure_occurrence<\/span><\/pre>\n5.observation<\/span><\/pre>\n6.note<\/span><\/pre>\n7.drug_exposure<\/span><\/pre>\n\u00a0<\/div>\nThe\u00a0condition_occurrence<\/b>\u00a0table had the most records to undelete (~5 million).\u00a0 The other tables only had a few thousand records each.<\/span><\/div>\n\u00a0<\/div>\nUnfortunately, these records were missing between November 10, 2024 and when we resolved the problem on February 15, 2026.\u00a0 Therefore, research teams who extracted data from OMOP during 2025 may want to perform an impact assessment by re-running their queries.<\/b><\/span><\/div>\n<\/div>\n\u00a0<\/div>\n*************************************************************************************************************************************************************<\/div>\n\nJuly 2025<\/strong>\u00a0– As of July 15, 2025, the MSDW chargeback rate is $177 per hour<\/strong>. For any questions, please reach out to ranjini.kottaiyan@mssm.edu.<\/p>\n2025 –<\/strong> AIR\u00b7MS (Artificial Intelligence-Ready Mount Sinai)<\/a> is a cloud-based, multi-modal health data platform that integrates patient data generated from different clinical departments across Health Systems. At this time, the following datasets are offered on the platform:<\/p>\n\n- Identifiable and de-identified versions of Mount Sinai Data Warehouse (MSDW) datasets.<\/li>\n
- Clinical notes in the form of unstructured data (progress notes, telephone encounters, nursing notes, procedures, etc.) that have been enabled with in-memory full-text search capabilities empowering researchers to build patient cohorts based on terms contained in unstructured reports in seconds or even milliseconds!<\/li>\n
- Pathology metadata which will aid researchers in the field of Computational Pathology.<\/li>\n<\/ul>\n
\u00a0<\/p>\n
October 2024-March 2025 –<\/strong> Scientific Computing and Data, Mount Sinai Innovation Partners, the Department of Molecular Pathology, and Tisch Cancer Institute have partnered with genomic testing vendors to develop a genomic research data warehouse comprised of somatic genomic testing results ordered at all Mount Sinai facilities. All somatic genomic tests performed by Foundation Medicine and Caris for Mount Sinai patients are hosted on MSDW in multiple data formats, encompassing both structured and raw genomic data. For more information click here<\/a>.<\/p>\n<\/div>\n\u00a0<\/p>\n
October, 2024 – <\/b><\/b>Scientific Computing and Data\u00a0is pleased\u00a0to announce that all\u00a0current and historic patient home addresses\u00a0recorded in Epic have been\u00a0geocoded\u00a0using the Decentralized Geomarker Assessment for Multi-Site Studies (DeGAUSS) application and are now stored in the\u00a0Mount Sinai Data Warehouse (MSDW). A<\/b><\/b>ccess 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<\/strong>. If you have any questions about accessing these new data sources, please contact the MSDW team (MSDW support<\/a>).<\/p>\n\n\u00a0<\/p>\n<\/div>\n
[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row column_structure=”1_2,1_2″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_column type=”1_2″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_button admin_label=”More News Button” button_url=”https:\/\/labs.icahn.mssm.edu\/minervalab\/scientific-computing-and-data\/newsroom\/” button_text=”More News” button_alignment=”right” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_margin=”0px||||false|false” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][\/et_pb_column][et_pb_column type=”1_2″ _builder_version=”4.9.0″ _module_preset=”default” custom_padding=”0px||||false|false”][et_pb_button admin_label=”Open a Ticket Button” button_url=”https:\/\/labs.icahn.mssm.edu\/msdw\/open-a-ticket\/” button_text=”Open a Ticket” button_alignment=”left” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_margin=”0px||||false|false” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”#f8f8f8″ custom_padding=”20px|0px|20px|0px|false|false” prev_background_color=”#ffffff” next_background_color=”RGBA(0,0,0,0)”][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”OMOP Query Tools” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
OMOP Query Tools<\/h2>\n
Which tool should I use?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_3,1_3,1_3″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Leaf” title=”Leaf” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/leaf-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
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.<\/span><\/p>\nResources and Info<\/a>\u00a0<\/a>\u00a0|\u00a0\u00a0Launch Leaf\u00a0<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”ATLAS” title=”ATLAS” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/atlas-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
A web-based query tool that analyzes data standardized in the OMOP CDM format.<\/span><\/span>\u00a0Mount Sinai users must\u00a0have a school account<\/a>\u00a0for access.<\/p>\nResources and Info<\/a>\u00a0<\/a>\u00a0|\u00a0\u00a0Launch ATLAS<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”TriNetX” title=”TriNetX” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/trinetx-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
A web-based query tool that queries<\/span>\u00a0<\/span>de-identified\u00a0<\/span>Epic data<\/span>, including demographics, diagnoses, lab results and more<\/span><\/span>.\u00a0Request Access.<\/a><\/p>\nTriNetX Tutorial<\/a>\u00a0 |\u00a0\u00a0Launch TriNetX<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”RGBA(0,0,0,0)” custom_padding=”40px|0px|20px|0px|false|false” prev_background_color=”#f8f8f8″ next_background_color=”#f8f8f8″][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”Data Sets” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
Data Sets<\/h2>\n
Which data set should I use?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_3,1_3,1_3″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”COVID-19 Data Sets” title=”COVID-19 Data Sets” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/covid-data-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
The<\/span>\u00a0<\/span>de-identified COVID-19 data sets\u00a0<\/span>include all patients at a Mount Sinai facility who have been\u00a0<\/span>screened for or\u00a0<\/span>diagnosed with\u00a0<\/span>COVID<\/span>.\u00a0<\/span><\/p>\nResources and Info<\/a>\u00a0|\u00a0Download Data<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Custom Data Request” title=”Custom Data Request” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/03\/msdwdata-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
The MSDW team\u00a0<\/span>will work<\/span>\u00a0with you to create a custom de-identified or PHI data set for your research or quality improvement project.<\/span>\u00a0<\/span><\/p>\nResources and Info<\/a>\u00a0|\u00a0Data Set Request Form<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”OMOP Data Marts” title=”OMOP Data Marts” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/03\/data-marts-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
MSDW supports continually refreshed OMOP-formatted data marts of your research projects’ patient cohorts of interest.<\/p>\n
Resources and Info<\/a>\u00a0|\u00a0Request Access<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”#f8f8f8″ custom_padding=”40px|0px|20px|0px|false|false” prev_background_color=”RGBA(0,0,0,0)” next_background_color=”#ffffff”][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”Services” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
Services<\/h2>\n
Which service is right for me?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_2,1_2″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_2″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”CTSA CD2H” title=”CTSA CD2H” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2023\/01\/cd2h_logo2-150×142.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
CTSA National Center for Data to Health (CD2H) provides additional resources to the community.<\/p>\n
CTSA Resources<\/a> | Conduits\u00a0<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_2″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Tools for OMOP” title=”Tools for OMOP” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/OHDSI-logo-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
Open source software tools can be used with MSDW’s Observational Medical Outcomes Partnership (OMOP) Common Data Model.<\/p>\n
OMOP CDM Tools<\/a> |\u00a0 OHDSI.org<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ _builder_version=”4.9.0″ _module_preset=”default” prev_background_color=”#f8f8f8″][et_pb_row _builder_version=”4.9.0″ _module_preset=”default”][et_pb_column type=”4_4″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_text admin_label=”Acknowledgements” _builder_version=”4.9.0″ _module_preset=”default” text_font_size=”16px” header_font=”|700|||||||” header_text_align=”center” header_2_font=”|700|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” text_orientation=”center” max_width=”800px” module_alignment=”center” hover_enabled=”0″ sticky_enabled=”0″]<\/p>\n
Acknowledge Mount Sinai in Your Work<\/h2>\n
All publications must include the following language in the acknowledgments section:\u00a0\u201cThis 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.\u201d\u00a0<\/strong><\/p>\nFor further information about acknowledging use of Minerva\/High Performance Computing (HPC) and Funding Sources click here<\/a>.<\/p>\n[\/et_pb_text][et_pb_button button_url=”https:\/\/labs.icahn.mssm.edu\/msdw\/data-use-agreement\/” button_text=”See Data Use Agreement” button_alignment=”center” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][et_pb_text admin_label=”CTSA” _builder_version=”4.9.0″ _module_preset=”default” text_font_size=”16px” header_font=”|700|||||||” header_text_align=”center” header_2_font=”|700|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” text_orientation=”center” max_width=”800px” module_alignment=”center”]<\/p>\n
Supported by grant UL1TR004419 from the National Center for Advancing Translational Sciences, National Institutes of Health.<\/p>\n
[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section]<\/p>\n","protected":false},"excerpt":{"rendered":"
Mount Sinai Data Warehouse Partnering with researchers and clinicians to effectively utilize Mount Sinai Health System data for translational and clinical research AnnouncementsALERT! Missing OMOP records from Epic upgrade bug in November 2024Mount Sinai’s Epic team upgrades the Epic EHR several times per year. \u00a0There was a bug during the upgrade in November 2024 that […]<\/p>\n","protected":false},"author":600,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"
\u00a0<\/h2>Data Services<\/span><\/h2>The MSDW team offers the following self-service applications, as well as custom queries and data de-identification. Learn more<\/a> about which service is right for you.<\/p>Cohort Query Tool (CQT)<\/strong><\/div>The Cohort Query Tool (CQT) is an easy-to-use, self-service web app available to the research community at Mount Sinai to query the MSDW. Request access here<\/a>. You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div>![\"\"](\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2020\/03\/Tutorial-e1584708012305.png\")
<\/a>\u00a0\u00a0![\"\"](\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2020\/03\/App-e1584708079918.png\")
\u00a0<\/a><\/div><\/div><\/div><\/div>\u00a0<\/div>\u00a0<\/p>
i2b2<\/strong><\/div>The i2b2 web application provides self-service access to a de-identified data mart maintained by the MSDW team. Request access here<\/a>.\u00a0You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
OMOP\/OHDSI ATLAS<\/strong><\/div>A web-based integrated platform for database exploration, standardized vocabulary browsing, cohort definition, and population-level analysis.\u00a0You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
TriNetX<\/strong><\/div>TriNetX is now available. Please request an account\u00a0here<\/a>\u00a0to get started.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
Data Dictionary<\/strong><\/div>The Data Dictionary illustrates transactions and data points that are collected from each source. It is a good resource to gain an understanding of available data.<\/div>\u00a0<\/div><\/a><\/div><\/div><\/div><\/div>\u00a0<\/p>
Available Data<\/span><\/h2>Mount Sinai Data Warehouse collects data from various sources, including EPIC, CERNER and others.\u00a0More Info\u00a0info on data types and sources can be found here<\/a>.<\/p>","_et_gb_content_width":"","footnotes":""},"class_list":["post-2","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/users\/600"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/comments?post=2"}],"version-history":[{"count":341,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2\/revisions"}],"predecessor-version":[{"id":3899,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2\/revisions\/3899"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/media?parent=2"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}
1.visit_occurrence<\/span><\/pre>\n2.measurement<\/span><\/pre>\n3.condition_occurrence<\/span><\/pre>\n4.procedure_occurrence<\/span><\/pre>\n5.observation<\/span><\/pre>\n6.note<\/span><\/pre>\n7.drug_exposure<\/span><\/pre>\n\u00a0<\/div>\nThe\u00a0condition_occurrence<\/b>\u00a0table had the most records to undelete (~5 million).\u00a0 The other tables only had a few thousand records each.<\/span><\/div>\n\u00a0<\/div>\nUnfortunately, these records were missing between November 10, 2024 and when we resolved the problem on February 15, 2026.\u00a0 Therefore, research teams who extracted data from OMOP during 2025 may want to perform an impact assessment by re-running their queries.<\/b><\/span><\/div>\n<\/div>\n\u00a0<\/div>\n*************************************************************************************************************************************************************<\/div>\n\nJuly 2025<\/strong>\u00a0– As of July 15, 2025, the MSDW chargeback rate is $177 per hour<\/strong>. For any questions, please reach out to ranjini.kottaiyan@mssm.edu.<\/p>\n2025 –<\/strong> AIR\u00b7MS (Artificial Intelligence-Ready Mount Sinai)<\/a> is a cloud-based, multi-modal health data platform that integrates patient data generated from different clinical departments across Health Systems. At this time, the following datasets are offered on the platform:<\/p>\n\n- Identifiable and de-identified versions of Mount Sinai Data Warehouse (MSDW) datasets.<\/li>\n
- Clinical notes in the form of unstructured data (progress notes, telephone encounters, nursing notes, procedures, etc.) that have been enabled with in-memory full-text search capabilities empowering researchers to build patient cohorts based on terms contained in unstructured reports in seconds or even milliseconds!<\/li>\n
- Pathology metadata which will aid researchers in the field of Computational Pathology.<\/li>\n<\/ul>\n
\u00a0<\/p>\n
October 2024-March 2025 –<\/strong> Scientific Computing and Data, Mount Sinai Innovation Partners, the Department of Molecular Pathology, and Tisch Cancer Institute have partnered with genomic testing vendors to develop a genomic research data warehouse comprised of somatic genomic testing results ordered at all Mount Sinai facilities. All somatic genomic tests performed by Foundation Medicine and Caris for Mount Sinai patients are hosted on MSDW in multiple data formats, encompassing both structured and raw genomic data. For more information click here<\/a>.<\/p>\n<\/div>\n\u00a0<\/p>\n
October, 2024 – <\/b><\/b>Scientific Computing and Data\u00a0is pleased\u00a0to announce that all\u00a0current and historic patient home addresses\u00a0recorded in Epic have been\u00a0geocoded\u00a0using the Decentralized Geomarker Assessment for Multi-Site Studies (DeGAUSS) application and are now stored in the\u00a0Mount Sinai Data Warehouse (MSDW). A<\/b><\/b>ccess 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<\/strong>. If you have any questions about accessing these new data sources, please contact the MSDW team (MSDW support<\/a>).<\/p>\n\n\u00a0<\/p>\n<\/div>\n
[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row column_structure=”1_2,1_2″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_column type=”1_2″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_button admin_label=”More News Button” button_url=”https:\/\/labs.icahn.mssm.edu\/minervalab\/scientific-computing-and-data\/newsroom\/” button_text=”More News” button_alignment=”right” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_margin=”0px||||false|false” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][\/et_pb_column][et_pb_column type=”1_2″ _builder_version=”4.9.0″ _module_preset=”default” custom_padding=”0px||||false|false”][et_pb_button admin_label=”Open a Ticket Button” button_url=”https:\/\/labs.icahn.mssm.edu\/msdw\/open-a-ticket\/” button_text=”Open a Ticket” button_alignment=”left” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_margin=”0px||||false|false” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”#f8f8f8″ custom_padding=”20px|0px|20px|0px|false|false” prev_background_color=”#ffffff” next_background_color=”RGBA(0,0,0,0)”][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”OMOP Query Tools” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
OMOP Query Tools<\/h2>\n
Which tool should I use?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_3,1_3,1_3″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Leaf” title=”Leaf” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/leaf-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
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.<\/span><\/p>\nResources and Info<\/a>\u00a0<\/a>\u00a0|\u00a0\u00a0Launch Leaf\u00a0<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”ATLAS” title=”ATLAS” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/atlas-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
A web-based query tool that analyzes data standardized in the OMOP CDM format.<\/span><\/span>\u00a0Mount Sinai users must\u00a0have a school account<\/a>\u00a0for access.<\/p>\nResources and Info<\/a>\u00a0<\/a>\u00a0|\u00a0\u00a0Launch ATLAS<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”TriNetX” title=”TriNetX” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/trinetx-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
A web-based query tool that queries<\/span>\u00a0<\/span>de-identified\u00a0<\/span>Epic data<\/span>, including demographics, diagnoses, lab results and more<\/span><\/span>.\u00a0Request Access.<\/a><\/p>\nTriNetX Tutorial<\/a>\u00a0 |\u00a0\u00a0Launch TriNetX<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”RGBA(0,0,0,0)” custom_padding=”40px|0px|20px|0px|false|false” prev_background_color=”#f8f8f8″ next_background_color=”#f8f8f8″][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”Data Sets” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
Data Sets<\/h2>\n
Which data set should I use?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_3,1_3,1_3″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”COVID-19 Data Sets” title=”COVID-19 Data Sets” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/covid-data-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
The<\/span>\u00a0<\/span>de-identified COVID-19 data sets\u00a0<\/span>include all patients at a Mount Sinai facility who have been\u00a0<\/span>screened for or\u00a0<\/span>diagnosed with\u00a0<\/span>COVID<\/span>.\u00a0<\/span><\/p>\nResources and Info<\/a>\u00a0|\u00a0Download Data<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Custom Data Request” title=”Custom Data Request” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/03\/msdwdata-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
The MSDW team\u00a0<\/span>will work<\/span>\u00a0with you to create a custom de-identified or PHI data set for your research or quality improvement project.<\/span>\u00a0<\/span><\/p>\nResources and Info<\/a>\u00a0|\u00a0Data Set Request Form<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_3″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”OMOP Data Marts” title=”OMOP Data Marts” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/03\/data-marts-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” border_color_top=”#00aeef” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
MSDW supports continually refreshed OMOP-formatted data marts of your research projects’ patient cohorts of interest.<\/p>\n
Resources and Info<\/a>\u00a0|\u00a0Request Access<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ admin_label=”Features” _builder_version=”4.9.0″ background_color=”#f8f8f8″ custom_padding=”40px|0px|20px|0px|false|false” prev_background_color=”RGBA(0,0,0,0)” next_background_color=”#ffffff”][et_pb_row admin_label=”CTA Row” _builder_version=”4.9.0″ custom_padding=”||||false|false”][et_pb_column type=”4_4″ _builder_version=”3.25″ custom_padding=”|||” custom_padding__hover=”|||”][et_pb_text admin_label=”Services” _builder_version=”4.9.0″ _module_preset=”default” header_font=”|600|||||||” header_2_font=”|600|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” custom_padding=”0px||0px||false|false”]<\/p>\n
Services<\/h2>\n
Which service is right for me?<\/a><\/p>\n[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row admin_label=”Features Row” column_structure=”1_2,1_2″ use_custom_gutter=”on” make_equal=”on” _builder_version=”4.9.0″ custom_padding=”0px||||false|false”][et_pb_column type=”1_2″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”CTSA CD2H” title=”CTSA CD2H” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2023\/01\/cd2h_logo2-150×142.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
CTSA National Center for Data to Health (CD2H) provides additional resources to the community.<\/p>\n
CTSA Resources<\/a> | Conduits\u00a0<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][et_pb_column type=”1_2″ _builder_version=”3.25″ background_color_gradient_direction=”243deg” custom_padding=”|||” custom_padding__hover=”|||”][et_pb_blurb admin_label=”Tools for OMOP” title=”Tools for OMOP” image=”https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/OHDSI-logo-150×150.png” _builder_version=”4.9.0″ header_font=”|600|||||||” header_text_color=”#221f72″ header_line_height=”1.4em” body_font=”||||||||” body_text_color=”#959baf” background_color=”#ffffff” text_orientation=”center” custom_margin=”|||” custom_padding=”20px|20px|40px|20px|false|false” animation_style=”zoom” animation_intensity_zoom=”10%” border_radii=”on|4px|4px|4px|4px” border_color_all=”#221f72″ border_width_top=”6px” box_shadow_style=”preset3″ box_shadow_color=”rgba(34,56,101,0.12)”]<\/p>\n
Open source software tools can be used with MSDW’s Observational Medical Outcomes Partnership (OMOP) Common Data Model.<\/p>\n
OMOP CDM Tools<\/a> |\u00a0 OHDSI.org<\/a><\/p>\n[\/et_pb_blurb][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section bb_built=”1″ _builder_version=”4.9.0″ _module_preset=”default” prev_background_color=”#f8f8f8″][et_pb_row _builder_version=”4.9.0″ _module_preset=”default”][et_pb_column type=”4_4″ _builder_version=”4.9.0″ _module_preset=”default”][et_pb_text admin_label=”Acknowledgements” _builder_version=”4.9.0″ _module_preset=”default” text_font_size=”16px” header_font=”|700|||||||” header_text_align=”center” header_2_font=”|700|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” text_orientation=”center” max_width=”800px” module_alignment=”center” hover_enabled=”0″ sticky_enabled=”0″]<\/p>\n
Acknowledge Mount Sinai in Your Work<\/h2>\n
All publications must include the following language in the acknowledgments section:\u00a0\u201cThis 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.\u201d\u00a0<\/strong><\/p>\nFor further information about acknowledging use of Minerva\/High Performance Computing (HPC) and Funding Sources click here<\/a>.<\/p>\n[\/et_pb_text][et_pb_button button_url=”https:\/\/labs.icahn.mssm.edu\/msdw\/data-use-agreement\/” button_text=”See Data Use Agreement” button_alignment=”center” _builder_version=”4.9.0″ _module_preset=”default” custom_button=”on” button_text_size=”13px” button_bg_use_color_gradient=”on” button_bg_color_gradient_start=”#00aeef” button_bg_color_gradient_end=”#221f72″ button_bg_color_gradient_direction=”243deg” button_border_width=”0px” button_border_radius=”26px” button_letter_spacing=”1px” button_font=”|600||on|||||” button_use_icon=”off” custom_padding=”15px|30px|15px|30px|false|false” button_bg_color_gradient_stops=”#00aeef 0%|#221f72 100%”]<\/p>\n
[\/et_pb_button][et_pb_text admin_label=”CTSA” _builder_version=”4.9.0″ _module_preset=”default” text_font_size=”16px” header_font=”|700|||||||” header_text_align=”center” header_2_font=”|700|||||||” header_2_text_color=”#221f72″ header_2_font_size=”35px” text_orientation=”center” max_width=”800px” module_alignment=”center”]<\/p>\n
Supported by grant UL1TR004419 from the National Center for Advancing Translational Sciences, National Institutes of Health.<\/p>\n
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Mount Sinai Data Warehouse Partnering with researchers and clinicians to effectively utilize Mount Sinai Health System data for translational and clinical research AnnouncementsALERT! Missing OMOP records from Epic upgrade bug in November 2024Mount Sinai’s Epic team upgrades the Epic EHR several times per year. \u00a0There was a bug during the upgrade in November 2024 that […]<\/p>\n","protected":false},"author":600,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"
\u00a0<\/h2>Data Services<\/span><\/h2>The MSDW team offers the following self-service applications, as well as custom queries and data de-identification. Learn more<\/a> about which service is right for you.<\/p>Cohort Query Tool (CQT)<\/strong><\/div>The Cohort Query Tool (CQT) is an easy-to-use, self-service web app available to the research community at Mount Sinai to query the MSDW. Request access here<\/a>. You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0\u00a0<\/a><\/div><\/div><\/div><\/div>\u00a0<\/div>\u00a0<\/p>
i2b2<\/strong><\/div>The i2b2 web application provides self-service access to a de-identified data mart maintained by the MSDW team. Request access here<\/a>.\u00a0You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
OMOP\/OHDSI ATLAS<\/strong><\/div>A web-based integrated platform for database exploration, standardized vocabulary browsing, cohort definition, and population-level analysis.\u00a0You can then use your Sinai network username\/password to login.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
TriNetX<\/strong><\/div>TriNetX is now available. Please request an account\u00a0here<\/a>\u00a0to get started.<\/div>\u00a0<\/div><\/a>\u00a0\u00a0<\/a><\/div><\/div>\u00a0<\/p>
Data Dictionary<\/strong><\/div>The Data Dictionary illustrates transactions and data points that are collected from each source. It is a good resource to gain an understanding of available data.<\/div>\u00a0<\/div><\/a><\/div><\/div><\/div><\/div>\u00a0<\/p>
Available Data<\/span><\/h2>Mount Sinai Data Warehouse collects data from various sources, including EPIC, CERNER and others.\u00a0More Info\u00a0info on data types and sources can be found here<\/a>.<\/p>","_et_gb_content_width":"","footnotes":""},"class_list":["post-2","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/users\/600"}],"replies":[{"embeddable":true,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/comments?post=2"}],"version-history":[{"count":341,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2\/revisions"}],"predecessor-version":[{"id":3899,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/2\/revisions\/3899"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/media?parent=2"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}