Nexus provides multiple ways to explore variant data — from natural language questions in the chat to detailed filters in the variant table.
Searching variants
With a case selected, ask Nexus to search for variants using any combination of criteria:
Show me pathogenic or likely pathogenic variants in BRCA1 with allele frequency below 0.01
Available filters
You can filter variants by:
| Filter | Description | Example |
|---|
| Gene | One or more gene symbols | BRCA1, TP53, EGFR |
| Pathogenicity | Clinical classification | Pathogenic, likely pathogenic, VUS |
| Zygosity | Variant genotype | Homozygous, heterozygous |
| Consequence | Predicted effect | Missense, nonsense, frameshift, splice |
| Allele frequency | Population frequency threshold | Below 1%, below 0.1% |
You don’t need to remember filter names. Describe what you’re looking for in plain language, and Nexus applies the right filters.
Variant analytics
Beyond searching, you can ask Nexus to aggregate and analyze variant data:
- “How many pathogenic variants does this patient have?”
- “What’s the distribution of variant consequences?”
- “Show me the top 10 genes by variant count”
Nexus returns statistics and can generate charts to visualize the results.
Using the variant table
The variant table in the case view gives you a hands-on way to explore variants:
- Filters panel — toggle filters on the left to narrow results
- Column sorting — click column headers to sort
- Resizable columns — drag column edges to adjust width
- Batch selection — select multiple variants for group actions
Combining panels with variant search
For targeted analysis, apply a gene panel to restrict your search:
Use the hereditary cancer panel to filter this patient's variants and show only pathogenic ones.
Marking findings
When you identify a variant of interest, you can mark it as a finding. Findings are saved to the case and can include your clinical notes and interpretation. 