Genetic Algorithms Select Protein Features Most Predictive of Enzyme Function. Andrew Kernytsky, Burkhard Rost Columbia University. Enzyme function prediction. Given protein sequence predict Enzyme Commission (EC) number. Ligases. Isomerases. Oxidoreductases. Lyases. Transferases.
Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.
Andrew Kernytsky, Burkhard Rost
Given protein sequence predict Enzyme Commission (EC) number
NC-IUBMB (1992) Recommendations of the International Union of Biochemistry on the Nomenclature and Classification of Enzymes. In, Enzyme Nomenclature. Academic Press, New York.
EC Wheel Figure: Porter CT, Bartlett GJ, Thornton JM. Nucleic Acids Res. 2004 January 1; 32: D129–D133.
Limited local information of Enzyme Function
Significant risk of overfitting during training
103+ features > 102 positive samplesIntersection properties capture local information
All intersection and global feature classes of Enzyme Function
All possible combinations
of feature classes[genomes]
Inner Learning Algorithm
AA sec AA×sec
1st 2nd 3rd 4th
Generation PopulationsAlgorithm overview