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SEPPA specifications

Information


Unique identifier OMICS_04195
Name SEPPA
Alternative name Spatial Epitope Prediction server for Protein Antigens
Interface Web user interface
Restrictions to use None
Input data A 3D protein structure.
Input format PDB
Computer skills Basic
Stability Stable
Maintained No

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Publications for Spatial Epitope Prediction server for Protein Antigens

SEPPA in publications

 (35)
PMCID: 5763123
PMID: 29445754
DOI: 10.1155/2017/2680160

[…] did not exceed a 40% of precision and a 46% of recall []. subsequently, more methods were developed, like ellipro [] that aims to identify protruding regions in antigen surfaces and pepito [] and seppa [] that combine single physicochemical properties of amino acids and geometrical structure properties. the reported area under the curve (auc) of these methods is around 0.7, […]

PMCID: 5915707
PMID: 29713601
DOI: 10.15171/bi.2018.06

[…] bes in abcpred server were predicted based on the artificial neural network algorithm (windows size 14, threshold 0.51). the conformational epitopes were selected based on the high-score outcomes of seppa v2.0, ellipro, and discotope v2.0 (threshold: -3.7) online servers. , the protein sequence of local eg14-3-3 was aligned with five ncbi’s complete sequences of other reported eg14-3-3 isolate […]

PMCID: 5751102
PMID: 29186775
DOI: 10.3390/ijms18122457

[…] epitopes. in that case, the application of current established models for epitope prediction would be limited. to test the performance of spatial epitope prediction tools on immunogenic antibodies, seppa 2.0 [] was selected for validation. in seppa 2.0 (spatial epitope prediction server for protein antigens version 2.0) , input antigens can be divided into nine categories according […]

PMCID: 5504017
PMID: 28694427
DOI: 10.1038/s41598-017-01640-4

[…] insertion resulted in one expanding loop in the p2 subdomain, whereas the deletion between 392 and 394 truncated the original loop of va387 (fig. ). the predicted structures were also submitted to seppa to calculate possible spatial epitopes (fig. ). in general, no obvious differences in potential conformational epitope regions between the different gii.3 variants and gii.4 nov were observed, […]

PMCID: 5528221
PMID: 28770077
DOI: 10.1002/ece3.3097

[…] lopez‐vaamonde, nappo, & bernardo, ; hayward & stone, ; stone et al., ), shift to different hosts (gebiola et al., ; nicholls et al., ), and locate hosts in fragmented landscapes (couchoux, seppa, & van nouhuys, ; hayward & stone, ; nair, fountain, ikonen, ojanen, & van nouhuys, ; sutton et al., )., seasonal migration of herbivorous insects to new habitats, which provides […]


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SEPPA institution(s)
School of Life Sciences and Technology, Tongji University, Shanghai, China; Institute for Advanced Study of Translational Medicine, Tongji University, Shanghai, China; College of Information Engineering, Shanghai Maritime University, Shanghai, China; Shanghai Center for Bioinformation and Technology, Shanghai, China
SEPPA funding source(s)
Supported by Ministry of Science and Technology China [2010CB833601, 2012AA020405]; National Natural Science Foundation of China [31171272, 31200986, 31100956 and 61173117].

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