Curate annotations in a case

Variants in your organization’s Curate database can show curated data on the Variant page and in the Variant table.

Curate variant annotations include:

• Pathogenicity
• ACMG classification
• Variant interpretation
• Curated variants visualization tracks

Curate gene annotations include:

• Reference transcript for a gene
• Gene interpretation

Curate data is identified by these indicators:

• Curate symbol (): Appears next to data sourced from Curate.
• Curate pathogenicity badge: A color-coded badge that identifies variant pathogenicity sourced from Curate.

Prerequisites

For Curate annotations to appear in a case, the variant or gene must:

• Have a record in your organization’s Curate database. Network-only variants do not display Curate annotations in Analyze unless imported.
• Be a supported type for variants.
• Have an annotation-enabled curation status (v100.41.0+).

Variant annotations

Pathogenicity

Variant pathogenicity stored in Curate is displayed:

• In the Known Variants column of the Variant table (Fig. 1)
• On the Variant page:

  • In the Summary tab (Fig. 2)
  • In the Clinical Significance tab (Fig. 3)
  • In the Evidence tab (Fig. 4)

Figure 1. Curate pathogenicity badge in the Known Variants column of the Variant table.

Figure 2. Curate pathogenicity badge in the Summary tab of the Variant page.

Figure 3. Curate symbol indicating curated pathogenicity in the Clinical Significance tab of the Variant page.

Figure 4. Curate symbol indicating curated pathogenicity in the Evidence tab of the Variant page.

ACMG classification

ACMG classification stored in Curate is automatically applied to small variants. This includes:

• Tag status
• Tag strength
• Answers to tag questions
• Tag notes

ACMG classification from Curate appears on the Variant page:

• In the Summary tab (Fig. 5)
• In the Evidence tab (Fig. 6)

Figure 5. Curate symbols indicating curated ACMG tags in the Summary tab of the Variant page.

Figure 6. Curate symbols indicating curated ACMG criteria in the Evidence tab of the Variant page.

Variant interpretation

You can import curated variant interpretation into Variant interpretation notes. See Import Curate variant interpretation to the case.

Visualization tracks

When enabled, Curate and CurateSV visualisation tracks show Curate variants alongside alignment data in the Visualization tab (Fig. 7).

Figure 7. Curate visualisation track in the Visualization tab of the Variant page.

Gene annotations

Reference transcript for a gene

The reference transcript set for a gene in Curate Genes is marked with a Curate symbol in the Clinical Significance tab of the Variant page (Fig. 8).

Figure 8. Curate symbol indicating the selected transcript in the Clinical Significance tab of the Variant page.

Gene interpretation

You can import curated gene interpretation into the Gene Interpretation tab or Variant interpretation notes. See Import Curate gene interpretation to a case.