Gibbs sampling shows possibilities of B-cell epitope signatures.
We have attempted finding common sequential patterns among protein antigens. For this, we have used Gibbs multiple motif sampler on the set of all non-redundant antigenic sequences available in curated databanks. Several sequential motifs are obtained on these sequences when the amino acids are represented according to their similarity clusters. Significantly high proportions of known B-cell epitope sites are found within or adjacent to these motifs, thus indicating a possibility of linear epitope signatures. These findings may offer important applications in synthesis of peptide vaccines. A predictive example in this regard is presented.
Joshi
Rajani R
RR
Department of Mathematics, Indian Institute of Technology Bombay, Mumbai, India. rrj@iitb.ac.in
Hira
Upal
U
Suri
Divyanshu
D
D000465:Algorithms; D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D000941:Antigens / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D018985:Epitopes, B-Lymphocyte / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D008969:Molecular Sequence Data; D015203:Reproducibility of Results
D000941:Antigens; D018985:Epitopes, B-Lymphocyte