Question: mapping known epitopes in a protein sequcence
0
gravatar for Pappu
4.3 years ago by
Pappu1.9k
Pappu1.9k wrote:

I want to map known epitopes in a protein sequence (antigen) to find out if it will evade the immune system or not. I found this website: http://www.iedb.org/ but not sure how to map so many small peptides to the protein sequence.

epitope • 1.0k views
ADD COMMENTlink modified 4.3 years ago by Amitm1.9k • written 4.3 years ago by Pappu1.9k
0
gravatar for Amitm
4.3 years ago by
Amitm1.9k
UK
Amitm1.9k wrote:

hi,

how many? If its under 5k then you can go here for MHC Class I processing predictions -

http://www.cbs.dtu.dk/services/NetCTLpan/ (actually it is synthesis of MHC Class I recognition + proteasome cleavage + transport to surface. Read more on the site)

and here for Class II -

http://www.cbs.dtu.dk/services/NetMHCIIpan/

In general, the CBS Predictions servers have other useful utilities (which can process multiple sequences) related immuno stuff.

ADD COMMENTlink written 4.3 years ago by Amitm1.9k
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