Suggesting a Bioinformatic method to design epitope vaccines

Nazanin Atieh Kazemi-Sefat ©

Suggesting a Bioinformatic method to design epitope vaccines

کد: G-73295

نویسندگان: Nazanin Atieh Kazemi-Sefat ©

زمان بندی: زمان بندی نشده!

برچسب: ایمنی شناسی

دانلود: دانلود پوستر

خلاصه مقاله:

Background and Aim

Nowadays, Bioinfomatic and Immunoinformatic strategies suggested for the identification of structures that could trigger an effective immune response able of protecting against a specific disease. Epitope prediction is one of the most important bases of in-silico vaccine designing, nevertheless it depends on antigen identification, and most crucially epitope selection for an efficient immune response.

Methods

The first step is downloading specific genome sequences from Refseq in NCBI. By ORF finder we can find ORFs. In order to indicate localization of protein, PSORTb server can be used to find candidate extracellular and outer membrane proteins. Signal peptide sequence detection and removal were done by CBS server. Prediction of allergenic proteins and mapping of IgE epitope Algpred was used based on K nearest neighbors. For prediction SVM module based on amino acid composition, SVM module may be used in order to Allergenicity evaluation. Protein-Protein blast was used to check protein homology in human and mouse. VaxiJen and ToxinPred server apply to evaluate immunogenicity and toxicity. To remove transmembrane helix from the protein TMHMM server is applicable. Linear and conformational epitope prediction were done by IEDB and CBTOPE. Finally appropriate linker and adjuvant was used. PRABI server was used to validate second structure of protein. Third structure validation was done by SWISS-MODEL based on homology modeling and according to Main-Ramachandran-Plot. PortParam server determines the instability Index (II), physical and chemical properties of protein, MW and half-life. The latest validation is docking in order to check ability to protein binding to MHCI, II.

Results

Rapid identification of immune epitopes is based on computational predictions, which apply advance patterns and increasing epitope data base.

Conclusion

This approach processes many advantages over traditional methods, it diminishes time and cost in vaccine development; corrects the number of proteins to be studied, simplify the selection process can identify antigens present in small scales or expressed only at certain stages, which would prevent or hamper their purification; and permits for the research of non-cultivable or precarious microorganisms.

Keywords

Bioinfomatic; Immunoinformatic; epitope vaccines

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