Overlapping Peptide Library |
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Overlapping peptide library can be used for linear and continuous epitope mapping, which can in turn be used to figure out which part of a given protein or peptide contains the essential amino acids that contribute to its functionality. Characterized by two parameters, fragment length and offset number, each library is generated by breaking the original protein or peptide into many equal-length overlapping fragment, each has 8 to 20 residues in size. As a general guideline, a peptide fragment must be at least six residues in length for it to cover an epitope. The offset number is the number of amino acid residues shifted between adjacent fragments and it reflects the degree of overlap.
Careful selections of the offset number and the fragment length can minimize the experiment costs while maximizing data value. The offset number is usually chosen to be 1/3 of the fragment length. Usually, longer fragments are difficult to synthesize but the library generates fewer fragments. Also, it is more likely for the fragments to cover an epitope. The combination of low offset number and short fragment length generates the most number of fragments while the combination of high offset number and long fragment length produces the least number of fragments.
The overlapping peptide library has many applications. For example, the library can be used for the T-cell epitope determination in the areas of infectious diseases, oncology, and vaccine development. |
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Overlapping Peptide
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Alanine Scanning
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Truncation Library
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Positional Scanning
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Random Library
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Scrambled Library
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References
- Sospedra M, Pinilla C, and Martin R. Use of combinatorial peptide libraries for T-cell epitope mapping. Methods. Mar 2003; 29(3): 236-47
- Gershoni JM, Roitburd-Berman A, Siman-Tov DD, Tarnovitski Freund N, and Weiss Y. Epitope mapping: the first step in developing epitope-based vaccines. BioDrugs. 2007; 21(3): 145-56
- Hemmer B, Pinilla C, Appel J, Pascal J, Houghten R, and Martin R. The use of soluble synthetic peptide combinatorial libraries to determine antigen recognition of T cells. J. Pept. Res. Nov 1998; 52(5): 338-45
- Sung MH, Zhao Y, Martin R, and Simon R. T-cell epitope prediction with combinatorial peptide libraries. J. Comput. Biol. 2002; 9(3): 527-39
- Paulmurugan R, and Gambhir SS. Combinatorial library screening for developing an improved split-firefly luciferase fragment-assisted complementation system for studying protein-protein interactions. Anal. Chem. Mar 2007; 15; 79(6): 2346-53
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