METHOD FOR PREDICTING PROTEIN-BINDING SITES IN A DNA SEQUENCE WITH CONSIDERATION OF BINDING PARTNERS

摘要

The present invention relates to a method for predicting a base binding to protein in a DNA sequence, and has developed a method for predicting protein-binding sites in a DNA sequence with consideration for DNA binding partners. The present invention has developed a support vector machine (SVM) model for predicting a DNA base which binds with protein using both DNA and protein sequences and a SVM model for predicting a base which binds with protein only using a DNA sequence for the comparison, and thus it was confirmed that predicting using both the DNA and protein sequences was excellent in most of the performance measurement as compared to predicting only using the DNA sequence, and that the new model can predict different binding sites for a given DNA sequence when the partner changes. Therefore, the present invention can be useful for biochemical experiments since the base of protein binding DNA can be predicted only with sequence data even if the structure is unknown.