{"id":1326,"date":"2021-10-28T11:27:27","date_gmt":"2021-10-28T15:27:27","guid":{"rendered":"https:\/\/labs.icahn.mssm.edu\/msdw\/?page_id=1326"},"modified":"2025-06-09T11:19:25","modified_gmt":"2025-06-09T15:19:25","slug":"about-leaf","status":"publish","type":"page","link":"https:\/\/labs.icahn.mssm.edu\/msdw\/about-leaf\/","title":{"rendered":"About Leaf"},"content":{"rendered":"<p>[et_pb_section fb_built=&#8221;1&#8243; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221; custom_padding=&#8221;0px||0px||false|false&#8221;][et_pb_row _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221; custom_padding=&#8221;||0px||false|false&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;][et_pb_text _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;]<\/p>\n<p><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/scientific-computing-and-data\">Scientific Computing and Data<\/a>\u00a0\/\u00a0<a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\">Mount Sinai Data Warehouse<\/a> \/ <a href=\"https:\/\/leaf.mssm.edu\">Leaf<\/a> \/ About Leaf<\/p>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; specialty=&#8221;on&#8221; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;][et_pb_column type=&#8221;1_4&#8243; _builder_version=&#8221;3.25&#8243; custom_padding=&#8221;|||&#8221; custom_padding__hover=&#8221;|||&#8221;][et_pb_image src=&#8221;https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/09\/leaf-1024&#215;1024.png&#8221; title_text=&#8221;leaf&#8221; admin_label=&#8221;Leaf Logo&#8221; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;][\/et_pb_image][\/et_pb_column][et_pb_column type=&#8221;3_4&#8243; specialty_columns=&#8221;3&#8243; _builder_version=&#8221;3.25&#8243; custom_padding=&#8221;|||&#8221; custom_padding__hover=&#8221;|||&#8221;][et_pb_row_inner _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;][et_pb_column_inner saved_specialty_column_type=&#8221;3_4&#8243; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221;][et_pb_text admin_label=&#8221;About Leaf Text&#8221; _builder_version=&#8221;4.9.0&#8243; _module_preset=&#8221;default&#8221; text_font_size=&#8221;16px&#8221; header_font=&#8221;|600|||||||&#8221; header_text_color=&#8221;#221f72&#8243; header_2_text_color=&#8221;#221f72&#8243; hover_enabled=&#8221;0&#8243; sticky_enabled=&#8221;0&#8243;]<\/p>\n<h1>About Leaf<\/h1>\n<p>Leaf is a drag-and-drop, self-service query application used to directly query de-identified <a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/data-sources\/\">patient data in the Mount Sinai Data Warehouse.<\/a> Historically, Leaf has been successfully implemented at the University of Washington through the support of <a href=\"https:\/\/uwmedicine.org\/\">UW Medicine<\/a>, the <a href=\"https:\/\/www.iths.org\/\">Institute of Translational Health Sciences<\/a>, and the <a href=\"https:\/\/ctsa.ncats.nih.gov\/cd2h\/\">National Center for Data to Health<\/a>. Leaf source code has been released into the public domain at <a class=\"link link-uri openInAnotherWindow\" href=\"https:\/\/github.com\/uwrit\/leaf\" target=\"_blank\" rel=\"noopener\">https:\/\/github.com\/uwrit\/leaf<\/a>.The Mount Sinai Health System implementation of Leaf went live in September 2021.<\/p>\n<p>Leaf is currently in software version 1 at Mount Sinai and is occasionally updated. <a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/leaf-application-status\/\">Click here to see Leaf&#8217;s Status and Roadmap<\/a>.<\/p>\n<p>Leaf is supported by grant UL1TR004419 from the National Center for Advancing Translational Sciences, National Institutes of Health.<\/p>\n<p>&nbsp;<\/p>\n<h2>Leaf Accounts<\/h2>\n<p>Leaf is free to use and is available to all Mount Sinai School and Hospital users. All Leaf users must have their own accounts. Users can log in to <a href=\"https:\/\/leaf.mssm.edu\">https:\/\/leaf.mssm.edu<\/a> using Mount Sinai School or Hospital credentials. (As of August 2022, Mount Sinai users do not need to request account access through the service desk ticket system.)<\/p>\n<p>Questions about Leaf accounts or Leaf access may be submitted as a <a href=\"https:\/\/scicomp.atlassian.net\/servicedesk\/customer\/portal\/3\">service desk ticket<\/a>.<\/p>\n<p>&nbsp;<\/p>\n<h2>Leaf Support Materials<\/h2>\n<p>The Mount Sinai Data Warehouse team encourages users to utilize the training and support materials publicly available:<\/p>\n<ul>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/leaf-tutorial\/\">Leaf Tutorial<\/a><\/li>\n<li><a href=\"https:\/\/peak.mountsinai.org\/learn6.asp?id=178409&amp;courseid=6202\">Leaf Introduction Course (PEAK)<\/a><\/li>\n<li><a href=\"https:\/\/www.youtube.com\/watch?v=ZuKKC7B8mHI\">Leaf Clinical Data Explorer<\/a> (YouTube, 2019)<\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2023\/07\/Leaf_Timeline_Feature_Guide_v5.pdf\">Leaf Timeline Feature Guide<\/a> &#8211; July 13, 2023<\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-content\/uploads\/sites\/342\/2025\/03\/Leaf-and-Atlas-Training-03.05.25.pdf\">Leaf Application Training (PowerPoint Slides) &#8211; March 5, 2025<\/a><\/li>\n<li><a href=\"https:\/\/sc.u.hpc.mssm.edu\/MSDW\/Leaf_and_ATLAS_Training_Recording_03-05-2025.mp4\">Leaf\/ATLAS Application Training (Recording) &#8211; March 5, 2025<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2024\/01\/Leaf-and-Atlas-Training-01.17.2024.pdf\">Leaf Application Training (PowerPoint Slides) &#8211; January 17, 2024<\/a><\/li>\n<li><a href=\"https:\/\/sc.u.hpc.mssm.edu\/MSDW\/Leaf_and_ATLAS_Query_Tools_2024-01-17.mp4\">Leaf\/ATLAS Application Training (Recording) &#8211; January 17, 2024<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2023\/10\/Leaf-and-Atlas-Training-10.11.2023.pdf\">Leaf Application Training (PowerPoint Slides)<\/a> &#8211; October 11, 2023<\/li>\n<li><a href=\"https:\/\/sc.u.hpc.mssm.edu\/MSDW\/Leaf_and_ATLAS_Training_Recording_10-11-2023.mp4\">Leaf\/ATLAS Application Training (Recording)<\/a> &#8211; October 11, 2023<\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/minervalab\/wp-content\/uploads\/sites\/342\/2023\/02\/Leaf-and-Atlas-Training-02-23-2023.pdf\">Leaf Application Training (PowerPoint Slides)<\/a> &#8211; February 23, 2023<\/li>\n<li><a href=\"https:\/\/sc.u.hpc.mssm.edu\/MSDW\/Leaf_and_ATLAS_Training_Recording_02-23-2023-AJ_Caberto.mp4\">Leaf Application Training (Recording)<\/a> &#8211; February 23, 2023<\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/05\/Leaf-and-Atlas-Training-05-04-2022.pdf\">Leaf Training (PowerPoint Slides)<\/a> &#8211; May 4, 2022<\/li>\n<li><a href=\"https:\/\/gail01.u.hpc.mssm.edu\/MSDW\/Leaf_Training_Recording_05-04-2022.mp4\">Leaf Application Training Overview (Recording)<\/a> &#8211; May 4, 2022<\/li>\n<li><a href=\"https:\/\/gail01.u.hpc.mssm.edu\/MSDW\/MSDW_Leaf-ATLAS_Training_Recording_2021-12-14.mp4\">Leaf\/ATLAS Application Training (Recording)<\/a> &#8211; December 14, 2021<\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2021\/11\/Leaf-Atlas-training-11-03-2021.pdf\">Leaf\/ATLAS Training (PowerPoint Slides)<\/a> &#8211; November 3, 2021<\/li>\n<li><a href=\"https:\/\/gail01.u.hpc.mssm.edu\/MSDW\/MSDW_Leaf-ATLAS_Training_Recording_2021.mp4\">Leaf\/ATLAS Application Training (Recording)<\/a> &#8211; November 3, 2021<\/li>\n<\/ul>\n<p>&nbsp;<\/p>\n<h2>Leaf Data &amp; Features<\/h2>\n<p>Leaf utilizes ICD-10 codes to query de-identified patient data in the Mount Sinai Data Warehouse.<\/p>\n<ul>\n<li>Search de-identified patient data from the Mount Sinai Health System (<a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/data-sources\/\">click here for more<\/a>)<\/li>\n<li>Search metadata from Imaging Research Warehouse 1.0 (<a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-content\/uploads\/sites\/350\/2022\/04\/IRW-stats-leaf-patricia.pdf\">click here for more<\/a>)<\/li>\n<li>Search de-identified cohorts from the Cancer Institute Biorepository<\/li>\n<\/ul>\n<p>Leaf data types include:<\/p>\n<ul>\n<li>Conditions:\u00a0coded and descriptive diagnoses<\/li>\n<li>Procedures: procedure, service and events<\/li>\n<li>Demographics, further broken down into:\u00a0<em>Age<\/em>,\u00a0<em>Ethnicity<\/em>,\u00a0<em>Gender<\/em>,\u00a0<em>Race<\/em>, and\u00a0<em>Vital Status<\/em><\/li>\n<li>Encounters: patient visit\u00a0criteria<\/li>\n<li>Vitals: baseline patient health\u00a0criteria<\/li>\n<li>Lab Results: clinical, laboratory, and survey measurements<\/li>\n<li>Medications: medications prescribed and administered<\/li>\n<\/ul>\n<p>Query turnaround time takes seconds and results can visualize demographic details of cohorts in charts and diagrams in addition to a downloadable file. Leaf contains de-identified patient data only. To see how Leaf features compare to other MSDW query tools, <a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/services\/\">click here for Services<\/a>.<\/p>\n<p>&nbsp;<\/p>\n<h2>Leaf vs ATLAS<\/h2>\n<p>Compare Leaf to our other self-service query tool, <a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/about-atlas\/\">ATLAS<\/a>:<\/p>\n<table style=\"border: 1px solid #ffffff\" border=\"1px solid rgb(204, 204, 204)\" cellpadding=\"5px\">\n<tbody>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" bgcolor=\"#03A6E5\" width=\"300\"><span style=\"color: #03a6e5\">&#8211;<\/span><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" bgcolor=\"#03A6E5\" width=\"300\"><span style=\"color: #ffffff\"><strong>Leaf<\/strong><\/span><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" bgcolor=\"#03A6E5\" width=\"300\"><span style=\"color: #ffffff\"><strong>ATLAS<\/strong><\/span><\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Development<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Nic Dobbins, University of Washington<br \/>Open-source collaborators (including Mount Sinai)<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">OHDSI Community<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Similarities<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" colspan=\"2\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">\n<p style=\"text-align: center\">Open-source software<br \/>Extensive use by academic researchers<br \/>Specify cohort inclusion criteria<br \/>Visualize cohort characteristics<\/p>\n<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Ease of Use<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">User Friendly<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Learning curve<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Cohort Inclusion Criteria<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Easy drag-and-drop<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Complex rules, temporal dependencies<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Data Export<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">\u00a0Export cohort patient list (de-identified)<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Export cohort definition critera<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>Analytics Capabilities<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Minimal<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Built-in<\/td>\n<\/tr>\n<tr>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\"><strong>For Data Marts<\/strong><\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Extensive setup<\/td>\n<td style=\"padding: 5px;border: 1px solid #cccccc\" valign=\"top\" bgcolor=\"ffffff\" width=\"300\">Easy Setup<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<h1>Leaf Quick Links<\/h1>\n<ul>\n<li><a href=\"https:\/\/leaf.mssm.edu\/\">Launch Leaf<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/services\/\">Compare Leaf to other tools<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/leaf-application-status\/\">Application Status &amp; Roadmap<\/a><\/li>\n<li><a href=\"https:\/\/labs.icahn.mssm.edu\/msdw\/leaf-tutorial\">Tutorial<\/a><\/li>\n<li><a href=\"https:\/\/peak.mountsinai.org\/learn6.asp?id=178409&amp;courseid=6202\">Leaf Course (PEAK)<\/a><\/li>\n<li><a href=\"https:\/\/scicomp.atlassian.net\/servicedesk\/customer\/portal\/3\">Submit a Ticket<\/a><\/li>\n<\/ul>\n<p>[\/et_pb_text][\/et_pb_column_inner][\/et_pb_row_inner][\/et_pb_column][\/et_pb_section]<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Scientific Computing and Data\u00a0\/\u00a0Mount Sinai Data Warehouse \/ Leaf \/ About LeafAbout Leaf Leaf is a drag-and-drop, self-service query application used to directly query de-identified patient data in the Mount Sinai Data Warehouse. Historically, Leaf has been successfully implemented at the University of Washington through the support of UW Medicine, the Institute of Translational Health [&hellip;]<\/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":"","_et_gb_content_width":"","footnotes":""},"class_list":["post-1326","page","type-page","status-publish","hentry"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/1326","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=1326"}],"version-history":[{"count":35,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/1326\/revisions"}],"predecessor-version":[{"id":3681,"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/pages\/1326\/revisions\/3681"}],"wp:attachment":[{"href":"https:\/\/labs.icahn.mssm.edu\/msdw\/wp-json\/wp\/v2\/media?parent=1326"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}