Result

Pearson (mean across genes of per-gene Pearson correlation between predicted and observed expression) of Enformer (GTEx whole-blood expression prediction) on Feng GTEx v8 whole-blood expression, TSS +/- 98 kb, 768 genes

0.129 Pearson (mean across genes of per-gene Pearson correlation between predicted and observed expression)

Methods

Tested configuration: Enformer (GTEx whole-blood expression prediction)
Protocol: Feng GTEx whole-blood expression prediction, 768 genes, long input
Dataset: Feng GTEx v8 whole-blood expression, TSS +/- 98 kb, 768 genes
Procedure: Table 4, frozen embeddings + per-gene random forest regression
Evaluation: Enformer GTEx whole-blood expression evaluation
Coverage: Not reported scored / Not reported eligible
Uncertainty: Not reported by the source: Table 4 prints averages only; per-gene spread is shown only as a histogram (Fig. 3).
Evidence: Independent external evaluation · source checkedBenchmarking DNA foundation models for genomic and genetic tasks · Table 4, row 'Enformer*', column 'Average Prediction Correlation'

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: Per gene, subjects split 75:25; fivefold cross-validation for tuning
Adaptation: Frozen pretrained representation plus a supervised random-forest regressor fitted per gene
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.

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 0.129 Individual claims	Benchmarking DNA foundation models for genomic and genetic tasks Original source ↗ Table 4, row 'Enformer*', column 'Average Prediction Correlation' Version: PMC12663285.1 Retrieved: 2026-09-17T07:54:51.004119+00:00	source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-13T14:40:00Z independent paper Audit details Extracted by extract/extract_feng.py (deterministic parse of the XML table cells). Independent review: value, metric and identity match the source. Field: `attributes.printed_value` Source artifact SHA-256: `5d8ca9bcf88cc1b38ad667906a2e4699b1aefa6d31c6f49259784930353f3202` Hash scope: Exact retrieved primary paper artifact bytes. Inspected artifact Extraction artifact SHA-256: `5d8ca9bcf88cc1b38ad667906a2e4699b1aefa6d31c6f49259784930353f3202` Extraction artifact

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Sources and history

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

1 source record 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: feng-dna-fm-20261013-result-gtex-enformer-pearson

metric: pearson-correlation
metric direction: higher
unit: unitless
printed value: 0.129
numeric value: 0.129
metric qualifier: mean across genes of per-gene Pearson correlation between predicted and observed expression
source locator: Table 4, row 'Enformer*', column 'Average Prediction Correlation'
missing metadata: uncertainty: reason: unreported; note: Table 4 prints averages only; per-gene spread is shown only as a histogram (Fig. 3).
review: method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Re-downloaded the Europe PMC XML and matched the pinned SHA-256. Parsed Tables 1 and 4 with a separate ElementTree parser (review/signoff.py) and checked printed value, numeric value, metric, qualifier, unit, direction, locator (including bold marking) and the linked configuration and protocol.; reviewer: claude; reviewer note: Independent Claude (Opus 5.5) review agent, separate from the extraction agent feng-19 that built this batch. Automated review only; no human review claimed. Transcription, not reproduction.; reviewed at: 2026-10-13T14:40:00Z; artifact sha256: 5d8ca9bcf88cc1b38ad667906a2e4699b1aefa6d31c6f49259784930353f3202; retrieval url: https://www.ebi.ac.uk/europepmc/webservices/rest/PMC12663285/fullTextXML; note: Extracted by extract/extract_feng.py (deterministic parse of the XML table cells). Independent review: value, metric and identity match the source.

Related records

evaluation: Enformer GTEx whole-blood expression evaluation

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