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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 citations

 (61)
library_books

Fundamentals and Methods for T and B Cell Epitope Prediction

2017
J Immunol Res
PMCID: 5763123
PMID: 29445754
DOI: 10.1155/2017/2680160

[…] hey 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, which is indicative […]

library_books

Salivary intercellular adenosine triphosphate testing in primary caretakers: An examination of statistical significance versus diagnostic predictability

2017
PMCID: 5839252
PMID: 29744207
DOI: 10.1002/cre2.95

[…] ed to a high value threshold (Tanabe et al., ; Van Houte, ). The main limitations of cultural‐based methods is that the tests require incubation times of several days to assess the level of bacteria (Seppa, Pollanen, & Hausen, ). These culture‐based tests are time and space consuming within a dental office, and there is little evidence that these tests are routinely used in practice, outside clini […]

library_books

A novel B and helper T cell epitopes based prophylactic vaccine against Echinococcus granulosus

2017
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. […]

library_books

Identifying the Epitope Regions of Therapeutic Antibodies Based on Structure Descriptors

2017
Int J Mol Sci
PMCID: 5751102
PMID: 29186775
DOI: 10.3390/ijms18122457

[…] n 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 to its immune […]

library_books

Comparative phylogenetic analyses of recombinant noroviruses based on different protein encoding regions show the recombination associated evolution pattern

2017
Sci Rep
PMCID: 5504017
PMID: 28694427
DOI: 10.1038/s41598-017-01640-4

[…] Scientific, LLC, San Francisco, CA). Possible spatial epitopes were then predicted by submitting modeled 3D structures of capsid proteins to the protein antigen spatial epitope prediction web server (SEPPA) with the default threshold. […]

library_books

Different genetic structures revealed resident populations of a specialist parasitoid wasp in contrast to its migratory host

2017
Ecol Evol
PMCID: 5528221
PMID: 28770077
DOI: 10.1002/ece3.3097

[…] (Gebiola, 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 “enemy‐free space […]


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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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