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SeRenDIP-CE Conformational Epitope prediction Resultsnew job |
In the table below you can see the SeRenDIP-CE Conformational Epitope prediction example P0DTC4 — Name: SARS-CoV-2 Envelope small membrane protein — UniProtKB: VEMP_SARS2 . The table contains sequence position, prediction scores and classification based on the default cut-off of 0.5 (above is predicted interaction).
Download raw dataYou can download the output file and the full feature table.
Please cite:
- Qingzhen Hou1, Reza Haydarlou, Bas Stringer, Katharina Waury, Henriette Capel, Sanne Abeln, Jaap Heringa, K. Anton Feenstra SeRenDIP-CE: Sequence-based Interface Prediction for Conformational Epitopes Bioinformatics advance 11 May 2021, doi: 10.1093/bioinformatics/btab321 1Department of Biostatistics, School of Public Health & National institute of health data science of China; Shandong 250002, P. R. China
- Qingzhen Hou1, Paul De Geest, Christian Griffioen, Sanne Abeln, Jaap Heringa, K. Anton Feenstra. SeRenDIP: remastered alignment profiles for fast and accurate predictions of PPI interface positions. Bioinformatics 35, pp 4794–4796, 2019, doi: 10.1093/bioinformatics/btz428
13BIO-BioInfo – BioModeling, BioInformatics & BioProcesses, Université Libre de Bruxelles- Qingzhen Hou, Paul De Geest, Wim F. Vranken, Jaap Heringa and K. Anton Feenstra
Seeing the Trees through the Forest: Sequence-based Homo- and Heteromeric Protein-protein Interaction sites prediction using Random Forest. Bioinformatics, 2017, doi: 10.1093/bioinformatics/btx005
Color better than threshold:
Sequence Models Epitope Prediction Pos AA Model 1 Model 2 Model 3 Model 4 Model 5 Average Pred Std. Dev. Z-score x of 67 rows match filter(s) 5 V 0.722 0.616 0.636 0.690 0.664 0.666 I 0.0422 1.7047 6 S 0.706 0.678 0.660 0.686 0.638 0.674 I 0.0259 1.8069 7 E 0.688 0.776 0.682 0.728 0.694 0.714 I 0.0392 2.3179 8 E 0.672 0.720 0.686 0.704 0.686 0.694 I 0.0186 2.0624 9 T 0.588 0.660 0.606 0.706 0.634 0.639 I 0.0465 1.3624 10 G 0.548 0.580 0.556 0.628 0.614 0.585 I 0.0351 0.6777 11 T 0.586 0.654 0.562 0.626 0.656 0.617 I 0.0417 1.0814 12 L 0.586 0.626 0.590 0.634 0.626 0.612 I 0.0226 1.0252 13 I 0.504 0.586 0.534 0.540 0.594 0.552 I 0.0377 0.2485 14 V 0.432 0.558 0.494 0.556 0.560 0.520 I 0.0565 -0.1552 15 N 0.450 0.576 0.460 0.528 0.622 0.527 I 0.0739 -0.0632 16 S 0.374 0.504 0.424 0.454 0.580 0.467 NI 0.0787 -0.8297 17 V 0.410 0.516 0.450 0.468 0.544 0.478 NI 0.0532 -0.6968 18 L 0.446 0.522 0.474 0.514 0.540 0.499 NI 0.0383 -0.4209 19 L 0.422 0.500 0.454 0.494 0.488 0.472 NI 0.0330 -0.7735 20 F 0.386 0.470 0.438 0.436 0.470 0.440 NI 0.0344 -1.1771 21 L 0.408 0.460 0.464 0.468 0.440 0.448 NI 0.0248 -1.0750 22 A 0.394 0.438 0.474 0.520 0.448 0.455 NI 0.0465 -0.9881 23 F 0.392 0.460 0.452 0.504 0.460 0.454 NI 0.0401 -1.0034 24 V 0.416 0.470 0.462 0.530 0.454 0.466 NI 0.0411 -0.8399 25 V 0.400 0.474 0.448 0.496 0.436 0.451 NI 0.0367 -1.0392 26 F 0.364 0.478 0.432 0.486 0.430 0.438 NI 0.0487 -1.2027 27 L 0.356 0.498 0.384 0.442 0.424 0.421 NI 0.0547 -1.4224 28 L 0.340 0.490 0.390 0.406 0.458 0.417 NI 0.0587 -1.4735 29 V 0.328 0.500 0.374 0.372 0.462 0.407 NI 0.0711 -1.5961 30 T 0.330 0.462 0.368 0.410 0.456 0.405 NI 0.0567 -1.6217 31 L 0.342 0.482 0.368 0.370 0.474 0.407 NI 0.0656 -1.5961 32 A 0.372 0.498 0.370 0.426 0.500 0.433 NI 0.0641 -1.2640 33 I 0.298 0.470 0.348 0.360 0.446 0.384 NI 0.0716 -1.8874 34 L 0.334 0.470 0.382 0.396 0.508 0.418 NI 0.0701 -1.4582 35 T 0.356 0.524 0.410 0.424 0.516 0.446 NI 0.0722 -1.1005 36 A 0.440 0.546 0.430 0.472 0.554 0.488 NI 0.0584 -0.5589 37 L 0.448 0.518 0.420 0.418 0.534 0.468 NI 0.0549 -0.8246 38 R 0.438 0.582 0.500 0.532 0.584 0.527 I 0.0611 -0.0632 39 L 0.490 0.502 0.454 0.504 0.524 0.495 NI 0.0259 -0.4771 40 C 0.402 0.536 0.512 0.452 0.570 0.494 NI 0.0673 -0.4822 41 A 0.466 0.490 0.398 0.490 0.554 0.480 NI 0.0561 -0.6713 42 Y 0.474 0.518 0.476 0.542 0.582 0.518 I 0.0457 -0.1756 43 C 0.484 0.510 0.446 0.528 0.532 0.500 NI 0.0356 -0.4107 44 C 0.490 0.492 0.482 0.520 0.586 0.514 I 0.0427 -0.2318 45 N 0.554 0.582 0.486 0.556 0.634 0.562 I 0.0535 0.3864 46 I 0.560 0.540 0.476 0.508 0.582 0.533 I 0.0420 0.0134 47 V 0.530 0.584 0.520 0.430 0.594 0.532 I 0.0654 -0.0070 48 N 0.540 0.626 0.518 0.546 0.684 0.583 I 0.0698 0.6470 49 V 0.554 0.584 0.522 0.504 0.616 0.556 I 0.0454 0.3047 50 S 0.554 0.622 0.544 0.528 0.632 0.576 I 0.0476 0.5602 51 L 0.520 0.626 0.508 0.506 0.610 0.554 I 0.0589 0.2791 52 V 0.494 0.672 0.522 0.482 0.600 0.554 I 0.0804 0.2791 53 K 0.590 0.644 0.518 0.564 0.658 0.595 I 0.0576 0.8003 54 P 0.512 0.608 0.502 0.522 0.614 0.552 I 0.0547 0.2485 55 S 0.482 0.582 0.510 0.508 0.606 0.538 I 0.0533 0.0696 56 F 0.524 0.564 0.530 0.494 0.592 0.541 I 0.0379 0.1105 57 Y 0.556 0.614 0.542 0.560 0.576 0.570 I 0.0276 0.4784 58 V 0.496 0.498 0.502 0.436 0.492 0.485 NI 0.0275 -0.6049 59 Y 0.588 0.574 0.624 0.576 0.550 0.582 I 0.0270 0.6419 60 S 0.632 0.582 0.592 0.544 0.652 0.600 I 0.0426 0.8719 61 R 0.606 0.622 0.576 0.548 0.622 0.595 I 0.0322 0.8003 62 V 0.624 0.628 0.616 0.566 0.622 0.611 I 0.0256 1.0098 63 K 0.634 0.652 0.624 0.656 0.562 0.626 I 0.0379 1.1938 64 N 0.610 0.592 0.620 0.590 0.572 0.597 I 0.0187 0.8259 65 L 0.584 0.604 0.602 0.598 0.572 0.592 I 0.0136 0.7646 66 N 0.614 0.618 0.598 0.640 0.570 0.608 I 0.0260 0.9689 67 S 0.620 0.564 0.606 0.596 0.620 0.601 I 0.0231 0.8821 68 S 0.580 0.564 0.602 0.604 0.602 0.590 I 0.0177 0.7441 69 R 0.626 0.594 0.608 0.586 0.652 0.613 I 0.0265 1.0354 70 V 0.648 0.568 0.572 0.648 0.632 0.614 I 0.0404 1.0405 71 P 0.618 0.612 0.592 0.622 0.588 0.606 I 0.0155 0.9485
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