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Overlapping peptide library can be used in epitope mapping. The peptide library generation process is defined by two parameters, peptide length and offset number. The offset number reflects the degree of overlapping. Careful selections of these two parameters are important to achieve optimum balance between data value and the experiment cost. As a general guideline, shorter peptides are easier to synthesize but they have less chances for multiple epitope hits. Greater degree of overlapping (small offset number) gives more chances of multiple epitope hits. Both above stated cases increase the number of peptides to be synthesized for the peptide library. Read more »
Alanine, the smallest chiral natural amino acid is used to substitute non-alanine residues at each position of the original peptide. The Alanine Scanning Library can be used to determine the relative importance of each substituted residues toward the original peptide's functionality since knocked off key residues reflect diminished peptide activity.Read more »
Truncation Library :
Truncation Library can be used to identify the shortest amino acid sequence needed for the peptide activity. The truncation process is carried out via a systemic reduction of resides from each flank of the original peptide. With the knowledge of the positions of key residues elucidated through Alanine Scanning Library, the construction of the truncation library could also be centered around these key amino acid residues.
(please use ';' between adjacent position input)
Positional Scanning Library is one of the key methods for sequence optimization. Achieved by substituting selected amino acid residues by all other natural amino acids one at a time, it has the capability to locate potential more favorable residue(s) at specified position(s) for enhanced peptide activity.Read more »
(The number of positions N is between 2-3 , The number of random combinations for N=2 is 400, and that for N=3 is 8000+400+400+400=9200) [ please use ';' between adjacent position input ],
Used in sequence optimization, Random Library is similar to positional scanning library. It's constructed by substituting selected positions on the original peptide randomly and simultaneously with all other natural amino acids in a shot gun approach with a purpose to elucidate potential alternatives for enhanced peptide activity.Read more »
Scramble Library is constructed by carrying out permutation on the original peptide's sequence. It has the potential to give all possible alternatives and offers and represents the highest degree of variability for peptide library.Read more »
Note: for most T cell epitope mapping applications, choose 11-mers as starting points for your peptide pools. The design tool will automatically generate 11-, 10-, 9- and 8-mer peptides. For other peptide lengths (ex. n-mer), n-, n-1, n-2 and n-3-mers will be generated.
T-cell truncated library:
T cell epitope identification is a critical part of designing highly specific immunotherapies. The T cell truncated library spans sequentially truncated sequences across a peptide sequence to identify important epitopes. Once identified, these sequences can be used to guide the development of targeted drugs or engineer specialized T cells for T cell therapy. Read more »