# Transcription Factor Binding Site Prediction on 165 ChIP-seq (test)

Source: [Transcription Factor Binding Site Prediction on 165 ChIP-seq (test)](<https://www.sota2.com/research/sota/transcription-factor-binding-site-prediction-on-165-chip-seq-test>)

Collection index: [llms.txt](<https://www.sota2.com/research/llms.txt>)

Data updated: 2026-02-26T05:27:10.564Z

Evaluation of model performance on predicting Transcription Factor Binding Sites using the 165 ChIP-seq test set, measured by Accuracy, ROC-AUC, and PR-AUC.

A research result applies to its stated dataset, split, metric and evaluation configuration. Compare like-for-like settings, preserve the metric's unit and direction, and distinguish paper-reported results from independent reproduction. The best result recorded here is not a claim of exhaustive, current global coverage.

| Scope | Recorded value |
| --- | --- |
| Task | Transcription Factor Binding Site Prediction |
| Dataset (including any stated split) | 165 ChIP-seq (test) |
| Metric | Accuracy |
| Unit | PERCENT |
| Direction | Higher is better |
| Results loaded | 11 of 11 |
| Coverage | All results currently returned for this benchmark |

Evaluation settings may differ between results. The original papers and recorded configurations are needed to establish comparability. A shared metric name alone does not establish an identical protocol.

## Metrics

- [Accuracy](<https://www.sota2.com/research/sota/transcription-factor-binding-site-prediction-on-165-chip-seq-test.md?metric=Accuracy>): Higher is better; unit: PERCENT.

- [ROC-AUC](<https://www.sota2.com/research/sota/transcription-factor-binding-site-prediction-on-165-chip-seq-test.md?metric=ROC-AUC>): Higher is better; unit: PERCENT.

- [PR-AUC](<https://www.sota2.com/research/sota/transcription-factor-binding-site-prediction-on-165-chip-seq-test.md?metric=PR-AUC>): Higher is better; unit: PERCENT.

## Recorded results

| Method | Accuracy | Result date | Report paper |
| --- | --- | --- | --- |
| GCBLANE | 88.7 | Not recorded | 68fa5f751e209131ce9ea17b |
| BERT-TFBS | 85.1 | Not recorded | 68fa5f751e209131ce9ea17b |
| MLSNet | 83.1 | Not recorded | 68fa5f751e209131ce9ea17b |
| TBCA | 82.3 | Not recorded | 68fa5f751e209131ce9ea17b |
| DSAC | 81.6 | Not recorded | 68fa5f751e209131ce9ea17b |
| DeepSTF | 81.4 | Not recorded | 68fa5f751e209131ce9ea17b |
| D-SSCA | 79.3 | Not recorded | 68fa5f751e209131ce9ea17b |
| CRPTS | 79.3 | Not recorded | 68fa5f751e209131ce9ea17b |
| DLBSS | 79.3 | Not recorded | 68fa5f751e209131ce9ea17b |
| DeepBind | 78.5 | Not recorded | 68fa5f751e209131ce9ea17b |
| DanQ | 78.2 | Not recorded | 68fa5f751e209131ce9ea17b |

### GCBLANE

Accuracy: 88.7. Result ID: 698bc9d17a967eddb77159d9.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

[Method origin paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

[Implementation](<https://github.com/projectultra/GCBLANE>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence"}. This record does not assert independent reproduction.

### BERT-TFBS

Accuracy: 85.1. Result ID: 698bc9d17a967eddb77159da.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence"}. This record does not assert independent reproduction.

### MLSNet

Accuracy: 83.1. Result ID: 698bc9d17a967eddb77159db.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### TBCA

Accuracy: 82.3. Result ID: 698bc9d17a967eddb77159dc.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### DSAC

Accuracy: 81.6. Result ID: 698bc9d17a967eddb77159dd.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### DeepSTF

Accuracy: 81.4. Result ID: 698bc9d17a967eddb77159de.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### D-SSCA

Accuracy: 79.3. Result ID: 698bc9d17a967eddb77159df.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### CRPTS

Accuracy: 79.3. Result ID: 698bc9d17a967eddb77159e0.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence, Shape"}. This record does not assert independent reproduction.

### DLBSS

Accuracy: 79.3. Result ID: 698bc9d17a967eddb77159e1.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence"}. This record does not assert independent reproduction.

### DeepBind

Accuracy: 78.5. Result ID: 698bc9d17a967eddb77159e3.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence"}. This record does not assert independent reproduction.

### DanQ

Accuracy: 78.2. Result ID: 698bc9d17a967eddb77159e2.

[Reporting paper](<https://www.sota2.com/research/paper/68fa5f751e209131ce9ea17b.md>)

Recorded evaluation configuration: {"DNA Information Type":"Sequence"}. This record does not assert independent reproduction.

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