Result

0.024 paQTL Cohen’s d

DNABERT-2 paQTL Cohen’s d

Tested configuration: DNABERT-2 (paQTL discrimination)
Protocol: Feng paQTL discrimination
Dataset: Feng paQTL discrimination short-window dataset
Procedure: Table 6, paQTL column, frozen embeddings + random forest classifier
Evaluation: DNABERT-2 paQTL discrimination evaluation
Coverage: scored: unreported; eligible: unreported
Uncertainty: Not reported
Evidence: Independent external evaluation · source checkedBenchmarking DNA foundation models for genomic and genetic tasks · Table 6, Cohen’s d block, DNABERT-2 row, paQTL column (deterministic XML extraction; rowspans resolved per data/omics/amp-coverage-20261007/feng/review-notes.md). Signed effect size; no universal desirable sign/direction is stated by the source.

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: Three disjoint outer chromosome test groups (3/6/9/12/16/18/19/21; 2/5/11/14/17/20/22/X; 1/4/7/8/10/13/15), each held out in turn with fourfold inner-chromosome cross-validation for hyperparameter tuning.
Adaptation: Frozen pretrained representation plus a supervised random-forest classifier head fitted for this exact QTL task
Scoring implementation: Not reported

No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.

Access requirements and official instructions: Feng paQTL discrimination

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

Source checking verifies the cited claim or transcription. It does not establish independent reproduction.

Evidence table

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1 evidence row matching the loaded filters

Claims, original sources and review scope · Release 2026-10-07-1448159e6a81
Property and statement	Original source and location	Review and provenance
Reported result 0.024 Individual claims	Benchmarking DNA foundation models for genomic and genetic tasks Original source ↗ Table 6, Cohen’s d block, DNABERT-2 row, paQTL column (deterministic XML extraction; rowspans resolved per data/omics/amp-coverage-20261007/feng/review-notes.md). Signed effect size; no universal desirable sign/direction is stated by the source. Version: PMC12663285.1 Retrieved: 2026-09-17T07:54:51.004119+00:00	source checked automated source review · 2026-10-07T13:38:59Z independent paper Audit details Bounded transcription of a Codex-checked primary-source cell. No independent experimental reproduction or qualified human scientific review. Field: `attributes.printed_value` Source artifact SHA-256: `5d8ca9bcf88cc1b38ad667906a2e4699b1aefa6d31c6f49259784930353f3202` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact

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Sources and history

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Release 2026-10-07-1448159e6a81 · Record review: source checked

1 source records and release history

Benchmarking DNA foundation models for genomic and genetic tasks · Original source · PMC12663285.1

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Technical metadata and extraction receipts

Stable ID: amp-feng-20261007-result-qtl-paqtl-dnabert-2-cohen-s-d

metric: paQTL Cohen’s d
metric direction: unknown
missing metadata: None recorded
numeric value: 0.024
printed value: 0.024
review: method: automated_source_review; notes: Bounded transcription of a Codex-checked primary-source cell. No independent experimental reproduction or qualified human scientific review.; reviewed at: 2026-10-07T13:38:59Z; reviewer: Claude Sonnet AMP-integration worker, bounded transcription of Codex-checked primary values (workbench/amp-supervision/primary-review.md, integration-review-corrections.md); pending qualified human scientific review
source locator: Table 6, Cohen’s d block, DNABERT-2 row, paQTL column (deterministic XML extraction; rowspans resolved per data/omics/amp-coverage-20261007/feng/review-notes.md). Signed effect size; no universal desirable sign/direction is stated by the source.
uncertainty: Not reported
unit: Cohen's d

Related records

evaluation: DNABERT-2 paQTL discrimination evaluation

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