Genomic sequence understanding on Nucleotide Transformer (NT) Downstream Tasks
61.4Enhancer Activity Prediction ScoreENFORMER
Evaluation results
| Method | Links | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ENFORMER2026.03 | 61.4 | 52.2 | 52 | 55.2 | 56.7 | 50.4 | 62.6 | 63.5 | 59.3 | 45.3 | 60.6 | 57.3 | 74.5 | 76.3 | 79.3 | 74.9 | 73.9 | 78 | — | — | — | |
| D3LMNumber of Parameters=50M2026.03 | 55.6 | 50.1 | 49.7 | 59 | 60.2 | 47.9 | 53.7 | 63.4 | 50.8 | 46.4 | 64.1 | 51.7 | 76.4 | 76.1 | 86.7 | 94.7 | 94.5 | 95.9 | — | — | — | |
| DNABERT-22026.03 | 51.7 | 49 | 49.1 | 59.9 | 63.7 | 49 | 55.8 | 64.6 | 56.4 | 44.3 | 65.5 | 47.6 | 75.4 | 76.9 | 78.4 | 83.7 | 85.5 | 86.1 | — | — | — | |
| NT-MSV2Number of Parameters=50M2026.03 | 51.1 | 50.1 | 48.3 | 59.5 | 60.7 | 47.8 | 54.9 | 62.7 | 53.8 | 43 | 63.7 | 45.9 | 73.1 | 75.6 | 74.7 | 92.2 | 92.8 | 91.5 | — | — | — | |
| EvoLenSteps=100k2026.04 | 49.6 | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | 55 | 76.5 | 67.8 | |
| BaseSteps=100k2026.04 | 48.7 | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | 53.7 | 74.7 | 69.3 | |
| GroverSteps=200k2026.04 | 47.9 | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | 54.8 | 73.5 | 79.6 | |
| HYENADNA2026.03 | 47.6 | 46.7 | 42.1 | 55 | 55.3 | 42.3 | 51.5 | 60.3 | 48.7 | 41.9 | 59 | 44.5 | 69.8 | 72.9 | 66.6 | 80.8 | 90.7 | 91.5 | — | — | — | |
| DNAbert2Steps=200k2026.04 | 46.8 | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | 54.5 | 72.9 | 69.6 | |
| NTSteps=200k2026.04 | 46.8 | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | — | 52.2 | 73.4 | 93.9 | |
| D3LM-RNumber of Parameters=50M, Training Data Scale=80K sequences2026.03 | 43.1 | 45.1 | 38.1 | 54.7 | 52.4 | 40.2 | 48.8 | 59.7 | 44.7 | 31.5 | 57.4 | 40.3 | 72.2 | 74.5 | 76.5 | 71.1 | 60.9 | 79.8 | — | — | — |