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Contents

Title and Copyright Information

Preface

• Documentation Accessibility
• Finding More Information
• Related Documents

1 What You Can Do with Oracle Healthcare Translational Research

2 Getting Started

• Landing Page
• Managing Queries
  • Searching and Viewing Your Queries
  • Modifying Queries
• Managing Cohort Lists
  • Searching and Viewing Your Cohort Lists
  • Modifying Cohort Lists
• Working with Gene Sets
  • Creating a New Gene Set
  • Editing a Gene Set
  • Managing a Gene Set
• Working with Jobs
  • Job Details
  • Job Inputs
  • Job Outputs
• Patient vs Subject Context

3 Working with Cohort Criteria and Queries

• Categories and Topics
  • Patient Information
  • Clinical Data
  • Genomic Data
• Selecting Cohort Criteria
• Working with Inclusion and Exclusion Criteria
  • Modifying Details of an Existing Criteria Statement
  • Logic within Inclusion and Exclusion Criteria
• Viewing Patient Count and Patient Data
• Viewing Specimen Count
• Saving a Query
• Loading a Saved Query

4 Working with the Cohort Viewer

• Introduction
• Viewing a Cohort List
  • Viewing Cohort List for Current Active Query
  • Viewing Cohort List for Library Query, List or Ad-hoc
  • Filtering Data in Cohort List
  • Displaying Reference Range Values
• Viewing Cohort Timelines
  • Selecting Patients or Subjects
  • Selecting Data
  • Displaying Patient or Subject Data
  • Selecting the Timeline Mode
• Aligning Data by Patient or Subject Event
• Including Criteria Used in Query
• Viewing Cohort Reports
  • Demographic Reports
  • Clinical Reports
  • Genomic Reports
• Exporting Genomic Data
  • Selecting Patients or Subjects
  • Selecting Results to Export
  • Selecting Location
  • Selecting File Type

5 Single Patient or Subject Viewer

• Viewing Records
  • Navigating Through Selected Patients or Subjects
  • Genomic Data
  • Selecting Assembly Version
  • Dalliance Browser
• Circular Genomics Viewer
  • Selecting Data to Plot

6 Genomic Query

• Genomic Query Tab
• Using Gene Search
• Using Variant Search

7 OBIEE Reports

• Viewing Standard Reports
• Selection of Date Range Using Statistics from and to Prompt
• Patients Diagnosed and Treated
• Number of Treatments Performed
• Ethnicity or Race of Newly Diagnosed Patients
• Age or Gender of Newly Diagnosed Patients
• Biospecimen Samples Status
• Details of Each Report and Prompt Set
  • Statistics from-to
  • Patients Diagnosed and Treated
  • Number of Treatments Performed
  • Ethnicity or Race of Newly Diagnosed Patients
  • Age or Gender of Newly Diagnosed Patients
  • Biospecimen Samples Status

8 User Management

• User Accounts
• Roles and Permissions
• Working with User Groups
  • Creating a User Group
  • Assigning Users to a Group
  • Removing Users from a Group
  • Managing User Groups