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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 P0DTC6 — Name: SARS-CoV-2 Non-structural protein 6 — UniProtKB: NS6_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 53 rows match filter(s) 5 V 0.570 0.656 0.632 0.600 0.636 0.619 I 0.0339 0.6746 6 D 0.570 0.748 0.700 0.722 0.700 0.688 I 0.0689 1.5900 7 F 0.534 0.728 0.622 0.678 0.690 0.650 I 0.0753 1.0926 8 Q 0.518 0.736 0.676 0.694 0.694 0.664 I 0.0843 1.2672 9 V 0.466 0.586 0.598 0.566 0.614 0.566 I 0.0586 -0.0239 10 T 0.474 0.612 0.584 0.596 0.668 0.587 I 0.0708 0.2513 11 I 0.444 0.630 0.610 0.570 0.654 0.582 I 0.0829 0.1825 12 A 0.440 0.592 0.510 0.470 0.606 0.524 I 0.0733 -0.5847 13 E 0.400 0.638 0.508 0.514 0.630 0.538 I 0.0987 -0.3942 14 I 0.372 0.574 0.392 0.424 0.496 0.452 NI 0.0831 -1.5372 15 L 0.336 0.548 0.456 0.424 0.586 0.470 NI 0.0998 -1.2938 16 L 0.356 0.532 0.414 0.402 0.520 0.445 NI 0.0773 -1.6271 17 I 0.408 0.602 0.476 0.450 0.554 0.498 NI 0.0788 -0.9234 18 I 0.396 0.538 0.506 0.458 0.600 0.500 NI 0.0776 -0.9022 19 M 0.426 0.468 0.478 0.410 0.586 0.474 NI 0.0689 -1.2461 20 R 0.422 0.578 0.474 0.534 0.520 0.506 I 0.0597 -0.8228 21 T 0.454 0.494 0.384 0.416 0.552 0.460 NI 0.0659 -1.4260 22 F 0.468 0.520 0.452 0.466 0.572 0.496 NI 0.0499 -0.9551 23 K 0.436 0.588 0.466 0.530 0.594 0.523 I 0.0709 -0.5953 24 V 0.466 0.534 0.470 0.436 0.560 0.493 NI 0.0517 -0.9869 25 S 0.460 0.550 0.478 0.478 0.594 0.512 I 0.0574 -0.7382 26 I 0.458 0.576 0.502 0.496 0.608 0.528 I 0.0619 -0.5265 27 W 0.450 0.600 0.478 0.432 0.540 0.500 NI 0.0693 -0.8969 28 N 0.440 0.592 0.540 0.512 0.568 0.530 I 0.0588 -0.4948 29 L 0.440 0.576 0.448 0.434 0.546 0.489 NI 0.0669 -1.0451 30 D 0.428 0.636 0.474 0.526 0.560 0.525 I 0.0799 -0.5689 31 Y 0.446 0.560 0.440 0.444 0.552 0.488 NI 0.0618 -1.0504 32 I 0.436 0.562 0.464 0.510 0.606 0.516 I 0.0696 -0.6906 33 I 0.396 0.558 0.504 0.466 0.590 0.503 I 0.0765 -0.8599 34 N 0.466 0.538 0.440 0.528 0.514 0.497 NI 0.0423 -0.9340 35 L 0.480 0.562 0.488 0.518 0.446 0.499 NI 0.0436 -0.9128 36 I 0.524 0.616 0.564 0.592 0.596 0.578 I 0.0356 0.1402 37 I 0.452 0.490 0.510 0.548 0.576 0.515 I 0.0486 -0.6958 38 K 0.574 0.592 0.544 0.546 0.622 0.576 I 0.0328 0.1031 39 N 0.634 0.596 0.556 0.604 0.624 0.603 I 0.0303 0.4629 40 L 0.586 0.534 0.564 0.630 0.644 0.592 I 0.0456 0.3148 41 S 0.540 0.558 0.572 0.550 0.620 0.568 I 0.0313 0.0026 42 K 0.604 0.676 0.596 0.602 0.634 0.622 I 0.0334 0.7222 43 S 0.562 0.626 0.628 0.660 0.622 0.620 I 0.0356 0.6852 44 L 0.598 0.614 0.616 0.652 0.574 0.611 I 0.0285 0.5688 45 T 0.614 0.624 0.594 0.652 0.576 0.612 I 0.0290 0.5846 46 E 0.712 0.680 0.616 0.742 0.644 0.679 I 0.0506 1.4683 47 N 0.668 0.668 0.608 0.720 0.634 0.660 I 0.0422 1.2143 48 K 0.658 0.636 0.724 0.726 0.720 0.693 I 0.0426 1.6535 49 Y 0.652 0.620 0.652 0.638 0.634 0.639 I 0.0135 0.9444 50 S 0.690 0.634 0.626 0.712 0.642 0.661 I 0.0379 1.2302 51 Q 0.754 0.706 0.682 0.724 0.708 0.715 I 0.0266 1.9445 52 L 0.656 0.674 0.624 0.734 0.646 0.667 I 0.0417 1.3095 53 D 0.734 0.724 0.680 0.730 0.690 0.712 I 0.0248 1.9022 54 E 0.720 0.652 0.606 0.684 0.674 0.667 I 0.0421 1.3148 55 E 0.640 0.620 0.578 0.684 0.600 0.624 I 0.0405 0.7487 56 Q 0.662 0.608 0.596 0.684 0.586 0.627 I 0.0432 0.7857 57 P 0.534 0.578 0.518 0.542 0.506 0.536 I 0.0275 -0.4260
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