summary from last class
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Summary from Last Class. Introduction to CIDER Opt Out Security and Auditing User responsibilities Definition of Project Data privileges Process workflows – user activation & project creation Session Timeout . Quiz Results. Review Quiz. Q-1 - PowerPoint PPT PresentationTRANSCRIPT
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CIDER - Today’s research, Tomorrow’s treatments
Lab-2September 15, 2010
Bijoy George, Program Manager, CBMI
http://cbmi.wustl.edu/
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Summary from Last Class
Introduction to CIDER Opt Out Security and Auditing User responsibilities Definition of Project Data privileges Process workflows – user activation & project
creation Session Timeout
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Quiz Results
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CIDER Quiz-1 Results from 9/8/2010
Correct Answer
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Review Quiz
Q-1 What trainings are mandatory for a user to activate
his/her user account in CIDER? Q-4
As a Washington University user, what should you do in the event of you losing OR compromising the downloaded data from CIDER?
Q-8 A user can query and view clinical data without using
a project. - True/ False
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Agenda for Today
Introduction to Menus Introduction to Dashboard Introduction to Vocabulary Interface Types of Queries in CIDER Use of shared and parameterized query CIDER Application demo Hands on Lab Quiz Q&A
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Dashboard
Dashboard is the page on which users would be taken to upon successful login
All items available to user are organized on this page under the Explorer
Can filter/search for a particular item Can customize number of records per page Pagination enabled at the top
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Dashboard
Dashboard
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Vocabulary Interface
BJC uses a custom coding system based on SNOMED 1993
It is called MED – Medical Entities Dictionary Vocabulary Interface establishes the mapping
b/w standard vocabularies Permissible values can be searched and
selected while forming queries The lab unit of measure, lab specimen type and
number of occurrences next to the codes
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Vocabulary Interface
Vocabulary Interface
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Vocabulary Interface Demo
Provides Permissible Values (PVs) for clinical variables in Demographics Visits Lab Tests Medications Documents
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Demographics
Gender Ethnic Origin Race
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Visits
Patient Type Discharge Service Admitting Service Facility Procedure Code Diagnosis Code
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Lab Tests
Specimen Type Laboratory Procedure Type Facility Laboratory Test Type
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Medications
Medication Medication Order Route Medication Component Route Medication Component Type Frequency
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Documents
Document – can do ‘google like’ search Document Name (Type) Facility
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Introduction to Queries
Two types Discover patient cohorts Obtain patient data
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How to use Shared Queries
Shared and Parameterized Queries Introduction
Selecting permissible values Adding permissible values Run query interactively or in background History available under Recent Queries
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Application Demo
Find patients with a particular Diagnosis Find patients with a particular Procedure Find patients having a Lab Test done Find patients who had taken a particular
Medication
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Hands on Lab-2
Use queries from Shared Queries to find out thefollowing for an unspecified project:
1. Find the number of patients with Type-2 Diabetes
2. Find the number of patients with Hypertrophic Cardiomyopathy (HCM)
3. Find number of patients with elevated levels of Troponin ( level > 0.2 nanograms per milliliter )
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Quiz-2
Please write your First name and Last Name on the quiz answer sheet to get proper credit
Please circle the best answer choice for each question
Please turn in the completed assignments to me before the end of the class
We will go over the answers and you will get your answer papers graded in the next class
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Take Home Assignment
Identify whether there are enough patients to conduct a study for your project and report the results by next class
OR Find the number of patients over the age 40 with breast
cancer diagnosed. Breast Cancer ICD-9 codes are as follows. [ICD-9 = 174 ->174.9 andICD-9 = 233.0)
AND Review CIDER help pages for Lab-3 Working with Workflowshttp://wikip2m1.cbmi.wucon.wustl.edu/ciderwiki/
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Appendix
CIDER Screen shots
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Menu Options My Dashboard
My Profile
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Menu OptionsSearch
New Search- Get Count
- Workflow
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Menu Options My ProjectsMy Queries
My WorkflowsApprove User
Request
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Dashboard
Components of Dashboard Projects
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Projects
My Projects
View Project
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View Project
Back to Project List
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Dashboard
Introduction to Dashboard Projects Queries
• Recent Queries• My Queries• Shared Queries
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Recent Queries
Run statusCompleted
Failed
Counts
View Parameters
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View Parameters under Recent Queries
Query Parameters
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My Queries
# of Queries
Query Type
Edit Query
Execute Query
Query Title
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Shared Queries
Edit Query
Execute Query
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Dashboard
Introduction to Dashboard Projects Queries Workflows
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Workflows
Workflows
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Dashboard
Introduction to Dashboard Projects Queries Workflow Message Board