TiM/EMAS Tutorial

Prerequisite

Make sure that you have java installed in your system. 
Please visit     http://www.java.com/en/   to accomplish this prerequisite.
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  • Make sure that you  De-compression tool (winrar or 7-Zip)to extract the downloaded TiM/EMAS.
  • Download TiM/EMAS.7z    Download
  • Extract the compressed file
  • Run Epitopes Prediction Software by double click TiM/EMAS
1- Upload the prediction model
2-Upload test data (fasta format or epitopes list)
3-Peptide length (Window length)
4-Prediction Method (Peptide method or residue based)
5-Input format (fasta sequences or epitopes list)
6-Make output file (add *.xls to open after prediction by excel)
7-Run Prediction

The result contain 4 columns:
    • First column  = Sequence ID
    • Second column = Position of the peptide in the sequence
    • Third column = The sequence of the peptide
    • Fourth column = The predicted score (between 1 and 0 )
    • Score 1 is better 0 is worse

The out put file that you saved can be open by excel and you can sort the result  by score or position


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Case Study

Epitopes Prediction of PLRV.pdf       View Download


M.B. Youssef, H.A. Nour El-Din, W.F. Abd EL-Wahed and A.A. Hemeida, 2012. Application of Epitopes Prediction for Antibodies Production against Potato Leaf Roll Virus. International Journal of Virology, 8: 121-127.
DOI: 10.3923/ijv.2012.121.127
URL: http://scialert.net/abstract/?doi=ijv.2012.121.127