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Using semantic similarity measures across Gene Ontology to predict protein-protein interactions

by Helgadóttir, Hanna Sigrún

Abstract (Summary)
Living cells are controlled by proteins and genes that interact through complex molecular pathways to achieve a specific function. Therefore, determination of protein-protein interaction is fundamental for the understanding of the cell’s lifecycle and functions. The function of a protein is also largely determined by its interactions with other proteins. The amount of protein-protein interaction data available has multiplied by the emergence of large-scale technologies for detecting them, but the drawback of such measures is the relatively high amount of noise present in the data. It is time consuming to experimentally determine protein-protein interactions and therefore the aim of this project is to create a computational method that predicts interactions with high sensitivity and specificity. Semantic similarity measures were applied across the Gene Ontology terms assigned to proteins in S. cerevisiae to predict protein-protein interactions. Three semantic similarity measures were tested to see which one performs best in predicting such interactions. Based on the results, a method that predicts function of proteins in connection with connectivity was devised. The results show that semantic similarity is a useful measure for predicting protein-protein interactions.
Bibliographical Information:

Advisor:

School:Högskolan i Skövde

School Location:Sweden

Source Type:Master's Thesis

Keywords:semantic similarity gene ontology protein interactions function

ISBN:

Date of Publication:03/19/2008

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