Information provided by the requesting lab, such as known biochemistry and planned applications is combined with bioinformatic analysis using a variety of server-based software.This analysis evaluates predicted areas of folding and disorder, secondary structure prediction, areas of homology and biochemical activity motifs.The possible domain boundaries are indentified and potential construct limits are proposed.The gene is also analyzed for codon usage in bacteria. A cloning strategy taking advantage of a substantial vector library is developed.The resulting plan is submitted to the requesting lab for review.Clonemanager software is then used to design and analyze oligos for PCR construction that are compatible with ligation-independent cloning.
Training:
Familiarize users with server-based software for analysis including: Foldindex, DisEMBL, Globplot, Jalview and Jpred. Demonstrate how the tools are applied, how to use the information from the analysis and what to concentrate on for construct design.
Consulting:
Oligo design
Load sequences of templates, use Clonemanager software to design, analyze and finalize sequences for ordering.
