title: Gibbs sampling shows possibilities of B-cell epitope signatures.
abstract: 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.
authors.affiliation: Department of Mathematics, Indian Institute of Technology Bombay, Mumbai, India. rrj@iitb.ac.in
authors.forename: Rajani R
authors.initials: RR
authors.lastname: Joshi
authors.forename: Upal
authors.initials: U
authors.lastname: Hira
authors.forename: Divyanshu
authors.initials: D
authors.lastname: Suri
mesh_terms: 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
chemical_list: D000941:Antigens; D018985:Epitopes, B-Lymphocyte