AUROC of finetuned DNABERT-2 on genome-wide TF binding sites
0.918 AUROC
Methods
- Tested configuration
- finetuned DNABERT-2
- Protocol
- TF-cell-type binding on held-out chromosomes8and9 (transcription-factor DNA binding-site prediction)
- Dataset
- genome-wide TF binding sites
- Related family profiles
- DNABERT-2
- Procedure
- Per-label AUROC/AUPR macro-averaged over 690 labels. Same Table 2 test cohort; methods differ in additional protein/dynamics inputs. DeepSEA-derived 690 TF-cell-type labels; chr 7 validation; remaining autosomes+X training; chr 8/9 test.
- Evaluation
- finetuned DNABERT-2: TF-cell-type binding on held-out chromosomes8and9
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- Not reported by the source
- Evidence
- Independent external evaluation · source checkedIntegrating protein and DNA embeddings for improving genome-wide transcription factor binding site prediction · Table 2., row finetuned DNABERT-2, column AUROC; XML row5 column2
A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: needs review. Source checked does not mean independently reproduced.
Reproduction
- Split
- DeepSEA-derived 690 TF-cell-type labels; chr 7 validation; remaining autosomes+X training; chr 8/9 test.
- Adaptation
- Paper-specific evaluated pipeline; exact checkpoint not inferred from label
- 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
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 |
|---|---|---|
| Reported result 0.9180 Individual claims | Integrating protein and DNA embeddings for improving genome-wide transcription factor binding site prediction Table 2., row finetuned DNABERT-2, column AUROC; XML row5 column2 Version: version of record | source checked ["transcription","automated-source-review"] · 2026-09-17 independent paper Audit detailsSource checked does not mean experimentally reproduced. Field: Source artifact SHA-256: Hash scope: Exact retrieved primary paper artifact bytes. |
Sources and history
Release 2026-11-02-a7f03c9e55a5 · Record review: source checked
1 source record and release history
- Integrating protein and DNA embeddings for improving genome-wide transcription factor binding site prediction · Original source · version of record
Technical metadata and extraction receipts
Stable ID: paper-result-ced903b7d93ba17186
- areas
- molecular-interactions
- tasks
- transcription-factor DNA binding-site prediction
- printed value
- 0.9180
- numeric value
- 0.9180
- metric
- auroc
- metric direction
- higher
- unit
- unitless
- source locator
- Table 2., row finetuned DNABERT-2, column AUROC; XML row5 column2
- source occurrences
- source id: part2-transbind-2026; locator: Table 2., row finetuned DNABERT-2, column AUROC; XML row5 column2
- review
- method: transcription; automated-source-review; date: 2026-09-17; note: Source checked does not mean experimentally reproduced.; method note: primary table; source review separate from transcription
- missing metadata
- checkpoint revision: reason: unextracted; eligible count: reason: unextracted; reported population: reason: unextracted; scored count: reason: unreported; uncertainty: reason: unreported