Pep-3D-Search statistics

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Pep-3D-Search specifications


Unique identifier OMICS_05745
Name Pep-3D-Search
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Windows
Computer skills Advanced
Stability No
Maintained No


No version available


This tool is not available anymore.

Publication for Pep-3D-Search

Pep-3D-Search citations


The Relationship Between B Cell Epitope and Mimotope Sequences

Protein Pept Lett
PMCID: 5427807
PMID: 26715528
DOI: 10.2174/0929866523666151230124538

[…] the surface of antigen and then alignment with the motif to get the optimal matching short peptides. Soon afterwards, some other methods and software were proposed, such as Mapitope [,], PepSurf [], Pep-3D-Search [], EpiSearch [] and MimoPro []. In 2011, we constructed a benchmark dataset for conformational B-cell epitope prediction and evaluated five mimotope-based prediction softwares []. The r […]


Conformational B Cell Epitope Prediction Method Based on Antigen Preprocessing and Mimotopes Analysis

Biomed Res Int
PMCID: 4326220
PMID: 25705652
DOI: 10.1155/2015/257030

[…] to predict conformational B-cell epitopes. In this work, we compared the new method with three other available mimotope-based conformational B-cell epitope prediction methods: PepSurf, EpiSearch, and Pep-3D-Search. These methods were tested in April of 2014, and the default parameters were adopted for each method. Figures , , , and give the sensitivity, PPV, ACC, and F of each method on the testi […]


Bioinformatics Resources and Tools for Conformational B Cell Epitope Prediction

PMCID: 3736542
PMID: 23970944
DOI: 10.1155/2013/943636

[…] imotope sequences cannot exceed 30 amino acids. The third prediction platform is PepMapper which is released by our team in May 2012 []. PepMapper also provides online service based on three methods: Pep-3D-Search, MimoPro, and the combined. Since Pep-3D-Search is based on the establishment of empirical background distribution for aligning score of every mimotope and antigen, and if the P value of […]


Virtual Interactomics of Proteins from Biochemical Standpoint

PMCID: 3423939
PMID: 22928109
DOI: 10.1155/2012/976385

[…] of an interacting partner and sequences of similarly interacting mimotopes, and has also concerned some interacting partners different from specific antigen receptors and antigens (programs PepSurf, Pep-3D-Search, and MimoPro [–]). Based on this approach, improved specificity, and extended the repertoire of predicted epitopes or other interacting partners were achieved. Further progress in progra […]


The Epitope and Neutralization Mechanism of AVFluIgG01, a Broad Reactive Human Monoclonal Antibody against H5N1 Influenza Virus

PLoS One
PMCID: 3360650
PMID: 22662275
DOI: 10.1371/journal.pone.0038126
call_split See protocol

[…] Two web-available computer programs, Mapitope and Pep-3D-Search , were applied to predict the AVFluIgG01 epitope based on the selected peptides (mimotopes) from the random phage display library. The algorithm of Mapitope is based on the assumption th […]

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Pep-3D-Search institution(s)
Institute of Genetics and Cytology, Northeast Normal University, Changchun, China

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