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Method

VARITY

Predicts the pathogenicity of rare missense variants, trained on a larger reservoir of training variants whose accuracy and representativity are uncertain, excluding features informed by variant annotation and protein identity to limit circularity and bias.

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11 configurations with results

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This method has no results of its own in this release. 11 linked records have results. They are not assigned to the underlying method: each record keeps its own settings and evaluations, and its scores are on its own page.

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Evidence

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Evidence table

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1 evidence row matching the loaded filters

Claims, original sources and review scope · Release 2026-10-22-1b7cf027e4f6
Property and statementOriginal source and locationReview and provenance
Description
Predicts the pathogenicity of rare missense variants, trained on a larger reservoir of training variants whose accuracy and representativity are uncertain, excluding features informed by variant annotation and protein identity to limit circularity and bias.
Individual claims		Improved pathogenicity prediction for rare human missense variants (VARITY)

Original source ↗

qa-descriptions-20261011-e-source-varity: Abstract

Version: Europe PMC full-text XML for PMC8546039, American Journal of Human Genetics 2021
Retrieved: 2026-10-11T01:38:41Z

source checked

["automated-source-review","ai-assisted-source-review"] · 2026-10-11

Audit details

Approved with two corrections, both applied: the MutFormer source licence is CC BY 4.0 per the arXiv abstract page, and the MetaRNN source locator now names the Background passage. Checked the 27 Chen 2020 descriptions row by row against Table 1 (PMC7033911) and spot-checked AlphaMissense, MisFit, popEVE, VARITY, MetaRNN, MutFormer and gMVP against their abstracts; accurate. Licences on the other new sources match Europe PMC.

Field: description

Claim: metadata-correction-d396105139c725848d77

Source artifact SHA-256: 8f0fc5ae7af02c855733196570c16805a39036fe2aad1119a0b159dd0be1a8f9

Hash scope: SHA-256 of one retrieval of the Europe PMC full-text XML. These renderings are not always byte-stable; the article text is the evidence.

Inspected artifact

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Sources and history

Release 2026-10-22-1b7cf027e4f6 · Record review: source checked

2 source records and release historyDownload this release (gzip)
Technical metadata and extraction receipts

Stable ID: somatic-oncogenicity-20261009-method-varity

areas
dna-genomes
contexts
clinical_research
method types
supervised_machine_learning
reported name
VARITY
entity level
method
source locator
Algorithm lists of the cited sources
missing metadata
version: reason: inapplicable; note: Family record; score sources are on configurations
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