Eigen
Scores variants by an unsupervised spectral method that combines the scores of other tools, allele frequencies and epigenomic signals; the paper evaluates both the Eigen and the Eigen-PC variant.
Results are recorded on linked configurations and versions of this method. Their settings and evaluations are kept separate below.
Results on linked records
This method has no results of its own in this release. 10 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.
- Concordant calls of Revel_b and Eigen-PC_b (Cubuk et al. 2021) Configuration · uses this model · 2 evaluations · 6 results
- Eigen-PC_a (Cubuk et al. 2021) Configuration · configuration · 2 evaluations · 6 results
- Eigen-PC_b (Cubuk et al. 2021) Configuration · configuration · 2 evaluations · 6 results
- Eigen (Brandes et al. 2023 head-to-head comparison) Configuration · configuration · 2 evaluations · 4 results
- Eigen-PC (Brandes et al. 2023 head-to-head comparison) Configuration · configuration · 2 evaluations · 4 results
- Eigen (Chen et al. 2020) Configuration · configuration · 2 evaluations · 10 results
- Eigen-PC (Chen et al. 2020) Configuration · configuration · 2 evaluations · 10 results
- Eigen-PC-raw_coding rank score, dbNSFP 5.3.1a (Lee 2026) Configuration · configuration · 3 evaluations · 6 results
- Eigen-raw_coding rank score, dbNSFP 5.3.1a (Lee 2026) Configuration · configuration · 3 evaluations · 6 results
- Eigen (Livesey and Marsh 2025) Configuration · configuration · 6 evaluations · 7 results
Overview
An explanatory profile has not yet been reviewed for this record.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Use this method
How it works, versions and access
Strengths, limitations and unresolved questions
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Description Scores variants by an unsupervised spectral method that combines the scores of other tools, allele frequencies and epigenomic signals; the paper evaluates both the Eigen and the Eigen-PC variant. Individual claims | Comprehensive assessment of computational algorithms in predicting cancer driver mutations somatic-oncogenicity-20261009-source-chen2020: Table 1, Summary of 33 computational algorithms included in this study Version: Genome Biology 21:43, published 2020-02-20; PMC7033911 full-text XML | source checked ["automated-source-review","ai-assisted-source-review"] · 2026-10-11 Audit detailsApproved 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: Claim: metadata-correction-31d04e927f6be67e74b9 Source artifact SHA-256: Hash scope: Hash scope not separately documented; inspect source record |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
2 source records and release history
- Comprehensive assessment of computational algorithms in predicting cancer driver mutations · Original source · Genome Biology 21:43, published 2020-02-20; PMC7033911 full-text XML
- An openly licensed benchmark and per-gene calibration map for missense pathogenicity predictors on activating cancer drivers · Original source · bioRxiv 2026.07.16.739080 v1, posted 2026-07-23; full-text HTML page
Technical metadata and extraction receipts
Stable ID: somatic-oncogenicity-20261009-method-eigen
- areas
- dna-genomes
- contexts
- clinical_research
- method types
- specialist
- reported name
- Eigen
- entity level
- method
- source locator
- Algorithm lists of the cited sources
- missing metadata
- version: reason: inapplicable; note: Family record; score sources are on configurations
Related records
- uses model: Concordant calls of Revel_b and Eigen-PC_b (Cubuk et al. 2021)
- configuration of: Eigen-PC_a (Cubuk et al. 2021)
- configuration of: Eigen-PC_b (Cubuk et al. 2021)
- configuration of: Eigen (Brandes et al. 2023 head-to-head comparison)
- configuration of: Eigen-PC (Brandes et al. 2023 head-to-head comparison)
- subject: Eigen: description
- configuration of: Eigen (Chen et al. 2020)
- configuration of: Eigen-PC (Chen et al. 2020)
- configuration of: Eigen-PC-raw_coding rank score, dbNSFP 5.3.1a (Lee 2026)
- configuration of: Eigen-raw_coding rank score, dbNSFP 5.3.1a (Lee 2026)
- configuration of: Eigen (Livesey and Marsh 2025)