IEEE Transactions on Software Engineering
An Information-Theoretic Definition of Similarity
ICML '98 Proceedings of the Fifteenth International Conference on Machine Learning
Using reasoning to guide annotation with gene ontology terms in GOAT
ACM SIGMOD Record
Correlation between Gene Expression and GO Semantic Similarity
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
A new method to measure the semantic similarity of GO terms
Bioinformatics
A New Path Length Measure Based on GO for Gene Similarity with Evaluation using SGD Pathways
CBMS '08 Proceedings of the 2008 21st IEEE International Symposium on Computer-Based Medical Systems
Fundamentals of Database Systems
Fundamentals of Database Systems
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We present in this paper novel techniques that determine the semantic relationships among genes and gene products. We implemented these techniques in a middleware system called GOtoGene, which resides between user application and Gene Ontology database. Given a set S of genes, GOtoGene would return another set S' of genes, where each gene in S' is semantically related to each gene in S. The framework of GOtoGene refines the concept of Lowest Common Ancestor by defining the concept of Semantically Relevant Lowest Common Ancestor using the concept of existence dependency. We evaluated GOtoGene experimentally and compared it with three other methods. Results showed marked improvement.