Variant Effect Prediction on Variant Effect

0.856Spearman Correlation

ESM2-150M All-pos MLM+JEPA

Updated 23d ago

Evaluation Results

Method	Links
ESM2-150M All-pos MLM+JEPA 2026.05		0.856
AMPLIFY-120M Masked-pos 2026.05		0.851
AMPLIFY-120M All-pos MLM+JEPA 2026.05		0.848
ESM2-150M Masked-pos (run 1) 2026.05		0.847
ESM2-35M Masked-pos (AdamW) 2026.05		0.846
ESM2-150M Masked-pos (run 2) 2026.05		0.843
Rand-Init-35M Masked-pos 2026.05		0.838
MLM+JEPA @90k 2026.05		0.836
ProteinBERT2-35M Masked-pos 2026.05		0.833
ESM2-35M Masked-pos (SGDm) 2026.05		0.832
ProteinBERT2-150M masked-pos 2026.05		0.832
ESM2-35M All-pos MLM+JEPA 2026.05		0.829
ESM2-150M MLM-only 2026.05		0.825
Rand-Init-35M MLM-only 2026.05		0.814
AMPLIFY-120M MLM-only 2026.05		0.805
ProteinBERT2-35M All-pos MLM+JEPA 2026.05		0.802
ESM2-35M MLM-only 2026.05		0.8
ESM2-150M EMA (4h) EMA 2026.05		0.798
ESM2-150M Baseline 2026.05		0.796
Rand-Init-35M All-pos MLM+JEPA 2026.05		0.791
JEPA-only @90k 2026.05		0.791
ESM2-35M Baseline 2026.05		0.79
AMPLIFY-120M Baseline 2026.05		0.79
ESM2-150M rand-init MLM-only 2026.05		0.781
AMPLIFY-120M JEPA-only 2026.05		0.753
ProteinBERT2-35M Baseline 2026.05		0.75
ProteinBERT2-35M MLM-only 2026.05		0.74
Rand-Init-35M JEPA-only 2026.05		0.739
ESM2-150M JEPA-only 2026.05		0.708
ESM2-35M JEPA-only 2026.05		0.67
ProteinBERT2-35M JEPA-only 2026.05		0.652
Rand-Init-35M Baseline 2026.05		0.557