LogoLogo
  • Getting Started in the VCI and GCI
    • About the Curation Interfaces
    • Account Creation and Login
      • Registration
      • Affiliations
      • Logging In
    • General Navigation
  • VCI Help
    • About Variant Curation
    • Selecting a Variant
    • The Evidence View
    • Starting an Interpretation
      • Interpretation mode view
      • Associating a variant with disease, mode of inheritance and specification document
        • Disease association
        • Mode of inheritance
        • Specification documents
    • Evaluating Criteria
      • Adding Curated Evidence
      • Case/Segregation Data
        • Adding Evidence Details
      • Functional Data
      • The Audit Trail
    • The Evaluation Summary
      • Viewing an Evaluation Summary
        • Modifying a Classification
      • Saving an Evaluation Summary
        • Record Statuses
        • Saving as a Provisional Interpretation
        • Saving as an Approved Interpretation
      • Viewing and Printing Summaries
    • Publishing from the VCI
      • Publishing to the ERepo
      • Publishing to ClinVar
    • Variant Prioritization
      • VP Access
      • Searching
      • The Filter View
      • Filters
      • Columns
      • The VP Data Pipeline
      • Data Output
  • GCI Help
    • About Gene-Disease Clinical Validity Curation
    • Creating a Gene-Disease Record
      • Creating a Free-Text Disease Identifier
    • Curation Central
    • Adding PubMed Articles
      • GCI Preprint Policy
    • Adding ClinVar Submissions
    • Evidence Collection: Overview
    • Evidence Collection: Genetic Evidence
      • Curating Group Information
      • Curating Family Information
      • Curating Individual Information
      • Curating Case-Control Information
      • Curating Variant Information
    • Evidence Collection: Experimental Evidence
      • Biochemical Function Evidence
      • Protein Interactions Evidence
      • Expression Evidence
      • Functional Alteration Evidence
      • Model Systems Evidence
      • Rescue Evidence
    • Previewing Curated Evidence
    • Saving, Reviewing and Approving Classifications
      • Saving the Summary Classification
      • Moving a Gene-Disease Record to Provisional Status
      • Approving a Gene-Disease Record
    • Publishing an Approved Gene-Disease Record
      • Editing the Disease Term of a Published Gene-Disease Record
      • Editing and Re-publishing a Published Summary
    • Recuration
    • GCI API
  • External Tools
    • Ontologies in the VCI and GCI
    • MONDO Search Help
    • HPO Search Help
  • More Information
    • Frequently Asked Questions
    • ClinGen Resources
    • About Us
      • The Team
    • VCI Terms of Use, User Agreement
Powered by GitBook
On this page
Export as PDF
  1. GCI Help
  2. Saving, Reviewing and Approving Classifications

Saving the Summary Classification

PreviousSaving, Reviewing and Approving ClassificationsNextMoving a Gene-Disease Record to Provisional Status

Last updated 2 years ago

A Summary Classification can be saved at any time during the curation process. To be able to save, first select the "View Classification Summary" button in the top panel of the gene-disease curation record.

The summary classification panel appears below the Classification Matrix and allows you to save the current clinical validity classification. In the panel, you can also select whether the evidence for a strong classification has been replicated over time (required for a "Definitive" classification). A free-text evidence summary must be provided before saving.

By default, the Clinical Validity Classification value calculated from the scored evidence will be saved. This value can be manually modified; to do so, select the chosen clinical validity term from the drop-down menu. If a modification is made, an explanation in the "Explain Reason(s) for Change" field is required.

Clicking the “Save” button at the bottom of the Calculated Classification Matrix box will save the Classification.

Saving a Classification at this step is not marking it as Provisional or Approved, but will bring up the option to save it as Provisional.

Upon saving, the contents of the panel will be updated to reflect the saved options, including a time stamp for the saving operation. Buttons that link back to the Record Curation page (Curation Central), to re-edit the Summary Classification, or to view the current Evidence Summary (which opens in a new tab or window) are provided.

With every visit to the "View Classification Summary" page, the three editable fields in the panel are available to be edited and saved again (i.e. you may update the modification based on any new Calculated Classification, update the "Reason(s) for Change" text, and/or update the evidence summary text).

If the final classification of a GDM is "No Known Disease Relationship", the calculated classification was not modified, and only animal models were counted towards the experimental evidence, an "Animal Model Only" tag is displayed.

A free-text summary of the gene curation evidence must be entered in the “Evidence Summary” box; this summary will be displayed on the website when the final clinical validity classification is published. Specific guidance and a sample Evidence Summary text is provided . The Evidence Summary text can be entered and formatted using the edit tool on the left hand side, and the right hand side panel will automatically show how the formatted text will be displayed on the website when it is published.

If the new calculated Total Points now suggest a Calculated Classification that is the same as a modified classification saved on the last visit, the modified classification will be reset to “No Modification”, and a red warning message will be displayed to explain this. If the Summary Classification has been saved previously, the tag will appear in the "My classification" section of the GDM dashboard.

here