Result

Accuracy (33-class RVDB dataset, 1-NN over frozen embeddings) of DNABERT-2, frozen embeddings, max, all tokens pooling, 1-NN (Bůžková et al. 2026) on RVDB C-RVDB v31.0 primary dataset, 33 refined classes

0.72 Accuracy (33-class RVDB dataset, 1-NN over frozen embeddings)

Methods

Tested configuration: DNABERT-2, frozen embeddings, max, all tokens pooling, 1-NN (Bůžková et al. 2026)
Protocol: RVDB 33-class viral classification by nearest-neighbour retrieval over frozen embeddings (Bůžková et al. 2026 Table 3)
Dataset: RVDB C-RVDB v31.0 primary dataset, 33 refined classes
Procedure: RVDB 33-class viral classification by nearest-neighbour retrieval over frozen embeddings (Bůžková et al. 2026 Table 3)
Evaluation: DNABERT-2, max, all tokens pooling, on the RVDB 33-class dataset
Coverage: Not reported scored / Not reported eligible
Uncertainty: Not reported by the source
Evidence: Independent external evaluation · source checkedAnalyzing Genomic Foundation Models for Viral Sequence Identification · Table 3, column 'DNABERT-2', row 'Max, all tokens'

A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: source checked. Source checked does not mean independently reproduced.

Reproduction

Split: 350 indexed and 150 queried sequences per class
Adaptation: None: frozen weights, max, all tokens pooling, 1-NN over the indexed training embeddings
Scoring implementation: Accuracy over test sequences

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Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.

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 2026-11-02-a7f03c9e55a5
Property and statement	Original source and location	Review and provenance
Reported result 0.7198 Individual claims	Analyzing Genomic Foundation Models for Viral Sequence Identification Original source ↗ Table 3, column 'DNABERT-2', row 'Max, all tokens' Version: bioRxiv v1, posted 2026-09-28 Retrieved: 2026-10-11T00:48:35Z	source checked ["source-hash-verification","pdf-text-parse","independent-cell-check"] · 2026-10-11 independent paper Audit details Independent review 2026-10-11: value and identity match the source. Field: `attributes.printed_value` Source artifact SHA-256: `9a589a2088f8466502b1035228db3e594065e984e5755c25d907471225f75c19` Hash scope: Hash scope not separately documented; inspect source record Inspected artifact Extraction artifact SHA-256: `9a589a2088f8466502b1035228db3e594065e984e5755c25d907471225f75c19` Extraction artifact

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Sources and history

Release 2026-11-02-a7f03c9e55a5 · Record review: source checked

1 source record and release history

Analyzing Genomic Foundation Models for Viral Sequence Identification · Original source · bioRxiv v1, posted 2026-09-28

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Technical metadata and extraction receipts

Stable ID: gfm2-20261011-buzkova2026-result-t3-dnabert-2-max-all

metric: accuracy
metric direction: higher
unit: fraction
printed value: 0.7198
numeric value: 0.7198
source locator: Table 3, column 'DNABERT-2', row 'Max, all tokens'
metric qualifier: 33-class RVDB dataset, 1-NN over frozen embeddings
missing metadata: uncertainty: reason: unreported
review: method: source-hash-verification; pdf-text-parse; independent-cell-check; method note: Re-downloaded the bioRxiv PDF (byte stream differs per request in the preprint banner; the text layer is identical) and matched the archived copy to the pinned SHA-256. Parsed the table from the `pdftotext -layout` text with a separate parser (review/review.py) and checked printed value, numeric value, metric, qualifier, unit, direction, locator and the linked configuration, protocol and dataset against the row and column headers and Sections 2 and 3.; reviewer: claude; reviewer note: Claude (Opus 5.5) review agent reviewer-gfm-a, independent of the extractor lit-gfm-2; no human review claimed; date: 2026-10-11; artifact sha256: 9a589a2088f8466502b1035228db3e594065e984e5755c25d907471225f75c19; retrieval url: https://www.biorxiv.org/content/10.64898/2026.09.25.754388v1.full.pdf; note: Independent review 2026-10-11: value and identity match the source.

Related records

evaluation: DNABERT-2, max, all tokens pooling, on the RVDB 33-class dataset

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