Report clinical significance
verbatim — never re-graded.
ClinVar is the public archive of variant-disease classifications. The one rule that matters: clinical significance and review status are reported exactly as ClinVar states them — Pathogenic stays Pathogenic. No model re-grades a clinical call. clinvar_search and clinvar_variant, research use only.
What the instrument does
ClinVar (NCBI) aggregates submitted interpretations of the clinical significance of genetic variants, with the review status that says how much scrutiny each classification received.
On the console, clinvar_search finds variants and clinvar_variant returns one — the classification, review status, associated condition and canonical SPDI — each field carried through untouched.
Tools this powers on the console
clinvar_search · clinvar_variant
Research use only. Service names belong to their owners; no partnership or endorsement is implied.
How Perslis integrates ClinVar
This is the sharpest edge of the whole runtime. A language model asked to judge a variant will happily produce a clinical opinion — which, for a real patient's variant, is dangerous. The console forbids it: ClinVar's classification passes through verbatim, review status attached, and the model is structurally barred from upgrading, downgrading or summarising it into a verdict.
ClinVar's clinical call sits beside VEP's algorithmic prediction and dbSNP's record so an agent sees them as separate evidence — the curated human classification never blurred with a computed guess. Every result is stamped research use only, not medical advice.
Ask
One question at the console — no per-service query language, no tab-hopping.
Route
Lois calls this instrument alongside the others and gathers what returns.
Pin
Every field keeps its source: database, accession, URL. A result that cannot name its source is refused by construction.
Admit
The PEEL gate decides what enters the lab record. Reported values stay verbatim; unsupported claims stay out.
A real, source-pinned result
Pulled live from the service and pinned to its identifier — the same contract every answer on the console is held to.
| Variant | NM_007294.4(BRCA1):c.5266dup (p.Gln1756fs) |
|---|---|
| Gene | BRCA1 |
| Clinical significance | Pathogenic (reported verbatim) |
| Review status | reviewed by expert panel |
| Condition | Breast-ovarian cancer, familial, susceptibility to, 1 |
| Variation ID | VCV000017677.174 |
Source: clinvar · 17677 · retrieved 2026-09-19 · research use only
Why route ClinVar through one console
Verbatim, by construction
Pathogenic stays Pathogenic. The model is structurally barred from re-grading a clinical classification.
Clinical kept separate
ClinVar's curated call never blurs with VEP's prediction — an agent sees two distinct kinds of evidence.
Review status attached
Every classification carries how much scrutiny it received — significance is never shown without its confidence.
Instruments ClinVar talks to
A clinical call is one of three views. ClinVar answers beside dbSNP's record and VEP's prediction.
