Multi-cohort Biomarker Classification on CPTAC
99NSCLC ST AccuracyCOBRA-V2
Evaluation results
| Method | Links | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| COBRA-V2magnification=5x, aggregation_mode=multi-FM weighting (Eq. 8), backbone=Virchow-22024.11 | 99 | 81.6 | 75.5 | 79.9 | 51.4 | 89 | 79 | 67.2 | 62.1 | 94.1 | 82.9 | 61.3 | 68.1 | 59.4 | 69.6 | 74.7 | |
| COBRA-V2magnification=5x, aggregation_mode=weighted aggregation (Eq. 6), backbone=Virchow-22024.11 | 98.9 | 82.6 | 74.6 | 80.1 | 55.9 | 88.8 | 78.2 | 69.5 | 66.3 | 94.3 | 83.5 | 61.5 | 59.8 | 60 | 53.5 | 73.8 | |
| Virchow2magnification=5x2024.11 | 98.3 | 70.8 | 74.8 | 74.9 | 57.3 | 79.1 | 66.3 | 56.4 | 62.8 | 49.2 | 64 | 47.9 | 55.3 | 75.6 | 60.3 | 67.5 | |
| CONCHmagnification=5x2024.11 | 97.8 | 74.4 | 67.9 | 74.2 | 57.5 | 80.4 | 63.9 | 60.5 | 64.3 | 56.1 | 58.8 | 69 | 58.9 | 62.7 | 57.5 | 66.2 | |
| COBRA-H0magnification=5x, aggregation_mode=weighted aggregation (Eq. 6), backbone=H-Optimus-02024.11 | 97.6 | 78.5 | 71.3 | 73.1 | 51.8 | 81.8 | 74.9 | 56.7 | 63.1 | 68.5 | 53.5 | 78.8 | 70.5 | 55.9 | 54.6 | 70.7 | |
| COBRA-UNImagnification=5x, aggregation_mode=mean over patch embeddings, backbone=UNI2024.11 | 97.2 | 78.8 | 73.1 | 52.2 | 60.9 | 82.8 | 77.7 | 61.1 | 65.2 | 59.8 | 50.6 | 54.5 | 79.3 | 67.9 | 58.5 | 68.5 | |
| COBRA-H0magnification=5x, aggregation_mode=mean over patch embeddings, backbone=H-Optimus-02024.11 | 97.1 | 79.8 | 76 | 54.1 | 56.7 | 81.6 | 79 | 62.5 | 55.4 | 60.6 | 53 | 47.2 | 51.6 | 79.9 | 69.1 | 68.3 | |
| COBRA-UNImagnification=5x, aggregation_mode=weighted aggregation (Eq. 6), backbone=UNI2024.11 | 97.1 | 77.1 | 71.5 | 75.2 | 57.3 | 84.3 | 81 | 68.7 | 70.4 | 73.8 | 49.3 | 58.4 | 47.9 | 78 | 67.5 | 70.7 | |
| COBRA-CTPmagnification=5x, aggregation_mode=mean over patch embeddings, backbone=CTransPath2024.11 | 96.6 | 66.3 | 71.9 | 74.6 | 51.6 | 82.7 | 74.3 | 57.1 | 68.2 | 58.5 | 58.2 | 48.8 | 51.9 | 82.3 | 71.4 | 67.9 | |
| COBRA-CTPmagnification=5x, aggregation_mode=weighted aggregation (Eq. 6), backbone=CTransPath2024.11 | 96.5 | 71.9 | 70 | 74.7 | 51.9 | 89 | 79 | 67.2 | 62.1 | 59.6 | 56 | 50.6 | 55.7 | 78.8 | 70.5 | 70.2 | |
| GigaPathmagnification=5x2024.11 | 96.2 | 62.9 | 71.3 | 70.5 | 57.8 | 81.9 | 58.4 | 57 | 54.9 | 52 | 53.6 | 82 | 68.2 | 84.9 | 65.4 | 73.8 | |
| CHIEFmagnification=5x2024.11 | 95.8 | 77.3 | 68.1 | 72.7 | 51.9 | 88.8 | 78.2 | 69.5 | 66.3 | 59 | 58.2 | 49.6 | 52.8 | 73.8 | 44.1 | 69 | |
| MADELEINEmagnification=5x2024.11 | 95.4 | 71.7 | 70.2 | 72.1 | 54.7 | 82.5 | 75.1 | 56.4 | 82.2 | 77.1 | 65.7 | 66 | 71 | 58.3 | 51.9 | 67.7 | |
| H-Optimusmagnification=5x2024.11 | 92.9 | 72.1 | 70.7 | 65 | 53.6 | 84.9 | 65.4 | 61.1 | 54.6 | 53.2 | 52.3 | 61.1 | 28.5 | 51.9 | 3.5 | 64 | |
| UNImagnification=5x2024.11 | 92.2 | 63.5 | 71.7 | 68 | 53 | 79.7 | 73.9 | 50.7 | 63 | 59.4 | 55.8 | 50.5 | 51.6 | 79.1 | 62 | 65.1 | |
| PRISMmagnification=5x2024.11 | 91.6 | 64 | 62.5 | 71.9 | 53.2 | 79 | 77.7 | 62.6 | 84.2 | 73.6 | 59.6 | 65.7 | 53.5 | 59.7 | 83.7 | 67.7 | |
| CTransPathmagnification=5x2024.11 | 91.5 | 67.9 | 62.6 | 68.3 | 50 | 79.1 | 75.5 | 52.4 | 57.2 | 94.7 | 81.5 | 61.3 | 65.2 | 75.5 | 61.1 | 65.5 | |
| GigaPath-SEmagnification=5x, slide_encoder=true2024.11 | 90.2 | 63.7 | 66.7 | 74 | 49.9 | 75.1 | 71.4 | 61.2 | 64.3 | 51.2 | 53.8 | 79.2 | 68.7 | 56.1 | 51.2 | 67.7 | |
| Virchowmagnification=5x2024.11 | 81.7 | 63.9 | 84 | 69 | 65.7 | 61.2 | 52.6 | 76.1 | 74.5 | 54.2 | 64.9 | 46.9 | 61.6 | 47.8 | 52.5 | 63.8 |