ANTIGENICITY PREDICTION OF EBOLA VIRUS PROTEIN VP40 (GROUP)

• Analysis of ebolavirus protein done by our group Saikrishna, Naushad and Xi.
• We used 3 different patients from NCBI BIO PROJECT module. We tried to analyze that is there any variation in the antigenicity (MHC-I) binding prediction which is done by using IEDB Analysis resource.

 Fig Represents the 3 patients we used to analyze the MHC-I binding prediction.

•  The 3 patients ID's are KM233115.1, KM233091.1, KM233042.1.
• Then we got I got the protein VP40 sequences from these individual patients and did my analysis in IEDB.
• In this I choose one particular allele HLA-0A*01 for all the 3 patients then analyzed to see that is there any change in the MHC-I binding peptide (EPITOPES).
• My team mate Naushad used all the alleles for the viral protein VP24 and Xi  used VP30 and did analysis using DNASTAR.
• You can visualize there blog through the following web link:
• Naushad - http://www.noshiahmad.blogspot.com
• Xi- http://www.missxiwangbioinformatics.wordpress.com 

 Analysis of a particular protein is done using IEDB for individual patients:

1. Patient - KM233115.1 - GenBank: AIG96606.1
2. Patient - KM233091.1 - GenBank: AIG96390.1
3. Patient - KM233042.1 - GenBank: AIG95949.1

                           Fig Represents the patient 1 MHC-I binding prediction.

Fig Represents the patient 2 MHC-I binding prediction.

Fig Represents the patient 3 MHC-I binding prediction

We even used DNASTAR to perform the experiment as my group mates performed but i performed for cross reference using online tool PROPRED-I which is a server used to calculate the MHC-I binding peptides.

• Even in this particular server we notice that "WTDDTPTGS" peptide is a binder but not he best one based on the calculations performed using Log scale values.
  Fig Represents page of Propred-I after submission of sequence
  We can notice that we can see the above mentioned peptide in the following sequence mentioned below
  
   According to the this server best binders for this sequence are :
  
  Fig Represents ranking of peptide binders using Log scale
  
  
  Conclusion: We notice that there is no change in the T cell antigenic determination there is no difference in the three patients with VP-40 gene. We can also see that the binders ranking based on the algorithms used.