Predicting the effects of gene deletion

ABSTRACT

In this paper, we describe techniques that can be used to predict the effects of gene deletion. We will focus mainly on the creation of predictive variables, and then briefly discuss different modeling techniques that have been used successfully on this data.

REFERENCES

• 1: Saccharomyces Genome Deletion Project web page, the list of essential ORFs link: http://www-sequence.stanford.edu/group/yeast_deletion_project/Essential_ORFs.txt
• 2: Functional Profiling of the Saccharomyces cerevisiae Genome. Nature 418: 387--391 (2002).
• 3: Winzeler, E., Shoemaker, D., Astromoff, A. Liang, H., et al. Functional Characterization of the Saccharomyces cerevisiae Genome by Gene Deletion and Parallel Analysis. Science. 285, 901--906. (1999).
• 4: Shoemaker, D., Lashkari, D.A., Morris, D., Mittmann, M. & Davis, R.W. Quantitative phenotypic analysis of yeast deletion mutants using a highly parallel molecular bar-coding strategy. Nature Genetics. 14, 450--456 (1996).

INDEX TERMS

Keywords:
KDD, KDD Cup, decision tree, deletion, essential, gene, interaction, model, prediction, text mining