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Protocols

SYFPEITHI specifications

Information


Unique identifier OMICS_02988
Name SYFPEITHI
Restrictions to use None
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline Dr. Stefan Stevanovic

Publication for SYFPEITHI

SYFPEITHI citations

 (120)
library_books

Trypanosoma cruzi 80 kDa prolyl oligopeptidase (Tc80) as a novel immunogen for Chagas disease vaccine

2018
PLoS Negl Trop Dis
PMCID: 5895069
PMID: 29601585
DOI: 10.1371/journal.pntd.0006384

[…] In order to assess the immune response mediated by cytotoxic T lymphocytes (CTL), we searched for Tc80 H2-Kk epitopes with different algorithms: SYFPEITHI [], RANKPEP [–] and IEDB []. From peptide prediction results () we selected and synthesized the one with the highest MHC-I binding score: SEAELRKKI.CTL activity against the predicted H-2Kk n […]

library_books

Immune monitoring and TCR sequencing of CD4 T cells in a long term responsive patient with metastasized pancreatic ductal carcinoma treated with individualized, neoepitope derived multipeptide vaccines: a case report

2018
J Transl Med
PMCID: 5801813
PMID: 29409514
DOI: 10.1186/s12967-018-1382-1

[…] ent, yet are both predicted to bind to HLA-B44 and show identical amino acids in anchor positions 2 (E) and 7 (R) []. Hydrophobic peptides 2 and 3 both bind to CD1d. Peptides 1 and 2 with the highest SYFPEITHI scores and NetMHCIIpan predictions induced most of the detectable CDR3 sequences and the highest number of clones (Table ).Three germline encoded CDR3 sequences (i.e. recombination of VD(J) […]

library_books

Identification of a Novel CD8 T Cell Epitope Derived from Plasmodium berghei Protective Liver Stage Antigen

2018
Front Immunol
PMCID: 5796907
PMID: 29434602
DOI: 10.3389/fimmu.2018.00091

[…] , we searched protein sequences for the presence of H-2b-restricted nonameric epitopes. We ranked peptides based on their scores in BIMAS, RANKPEP, IEDB algorithms for H-2Kb and BIMAS, RANKPEP, IEDB, SYFPEITHI algorithms for the H-2Db-molecule. Overall rank was calculated as a sum of all ranks for each predicted peptide. The cut-off limit was set as a rank <372 and <955 for Kb and Db algorithms, r […]

library_books

Mapping HLA A2, A3 and B7 supertype restricted T cell epitopes in the ebolavirus proteome

2018
BMC Genomics
PMCID: 5780746
PMID: 29363421
DOI: 10.1186/s12864-017-4328-8

[…] er [], MAPPP [], MULTIPRED2 [], PEPVAC [], and NetMHC [], among others. Earlier studies had elucidated putative T-cell epitopes of individual EBOV proteins [–] by use of bioinformatics tools, such as SYFPEITHI [, ], BIMAS [, ], IEDB [, ], NetMHCcons [], NetChop [], NetCTL [], NetCTLpan [], NetMHCpan [] and NetMHCIIpan []. However, the identification and analyses of T-cell epitopes from the complet […]

call_split

The generation of a simian adenoviral vectored HCV vaccine encoding genetically conserved gene segments to target multiple HCV genotypes

2018
Vaccine
PMCID: 5756538
PMID: 29203182
DOI: 10.1016/j.vaccine.2017.10.079
call_split See protocol

[…] Prediction of proteasomal cleavage sites was run using server NetChop 3.1, (version C-term 3.0). Epitope prediction analysis was run using online epitope prediction programs NetMHC, Syfpeithi and BIMAS with a cut-off for strong epitope binders of <0.5, >20, and >100, respectively. Potential immunogenicity of HCV immunogens was evaluated using the NetMHC prediction server (v3.4) f […]

library_books

Analysis of viral diversity for vaccine target discovery

2017
BMC Med Genomics
PMCID: 5763473
PMID: 29322922
DOI: 10.1186/s12920-017-0301-2

[…] terest from human, transgenic mice and lab mice studies that match at least nine amino acids of the predicted epitopes. Epitope databases include general ones, such as the Immune Epitope Database [], SYFPEITHI [], MHCBN [], and specialized ones, such as HCV immunology database [], HIV molecular immunology database [], and influenza database, among others. PubMed or Google search should be carried […]

Citations

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SYFPEITHI institution(s)
Department of Immunology, Institute for Cell Biology, University of Tübingen, Germany

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