Fuzzy sets and fuzzy logic: theory and applications
Fuzzy sets and fuzzy logic: theory and applications
The ordered weighted averaging operators: theory and applications
The ordered weighted averaging operators: theory and applications
Self-Organizing Maps
Fuzzy Measures on the Gene Ontology for Gene Product Similarity
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Neural Networks - 2006 Special issue: Advances in self-organizing maps--WSOM'05
Computing with words and its relationships with fuzzistics
Information Sciences: an International Journal
Journal of Biomedical Informatics
A new method to measure the semantic similarity of GO terms
Bioinformatics
Applications of Fuzzy Logic in Bioinformatics
Applications of Fuzzy Logic in Bioinformatics
Bioinformatics
IDA'07 Proceedings of the 7th international conference on Intelligent data analysis
Relational generalizations of cluster validity indices
IEEE Transactions on Fuzzy Systems
Relational duals of cluster-validity functions for the c-means family
IEEE Transactions on Fuzzy Systems
Computing with Words: Zadeh, Turing, Popper and Occam
IEEE Computational Intelligence Magazine
Self-organizing map for symbolic data
Fuzzy Sets and Systems
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This paper addresses the computing-with-words paradigm by presenting an ontological self-organizing map (OSOM), which produces visualization and summarization information about datasets composed of words, namely, ontological data. The specific data that are used in this paper are the Gene Ontology (GO) annotations of genes and gene products. The OSOM is an extension of the SOM, which was initially developed by Kohonen. We adapt the SOM by integrating ontology-based similarity measures and relational-clustering distance measures. We also develop a novel prototype update. We present results on two datasets composed of GO annotations of genes and gene products. An OSOM-based summarization, which produces the term-based summarizations of the trained OSOM network, is also demonstrated. The results show that the OSOM-based visualization method correctly shows the cluster tendency of the genes and gene products and that the summarization provides useful information about the mapped groups of genes and gene products.