Natural language analysis by stochastic optimization: a progress report on project APRIL
Journal of Experimental & Theoretical Artificial Intelligence
Foundations of statistical natural language processing
Foundations of statistical natural language processing
ACM SIGKDD Explorations Newsletter
Pattern Recognition with Fuzzy Objective Function Algorithms
Pattern Recognition with Fuzzy Objective Function Algorithms
Fuzzy Sets and Systems: Theory and Applications
Fuzzy Sets and Systems: Theory and Applications
Fuzzy Measures and Integrals: Theory and Applications
Fuzzy Measures and Integrals: Theory and Applications
Exploiting hierarchical domain structure to compute similarity
ACM Transactions on Information Systems (TOIS)
Conceptual Graph Matching for Semantic Search
ICCS '02 Proceedings of the 10th International Conference on Conceptual Structures: Integration and Interfaces
Four Metrics for Efficiently Comparing Attributed Trees
ICPR '04 Proceedings of the Pattern Recognition, 17th International Conference on (ICPR'04) Volume 2 - Volume 02
Journal of Biomedical Informatics
ADMA '07 Proceedings of the 3rd international conference on Advanced Data Mining and Applications
Construction of gene networks with hybrid approach from expression profile and gene ontology
IEEE Transactions on Information Technology in Biomedicine
Computing with words with the ontological self-organizing map
IEEE Transactions on Fuzzy Systems - Special section on computing with words
Relational generalizations of cluster validity indices
IEEE Transactions on Fuzzy Systems
Creating fuzzy concepts: the one-sided threshold, fuzzy closure and factor analysis methods
RSFDGrC'11 Proceedings of the 13th international conference on Rough sets, fuzzy sets, data mining and granular computing
Thematic fuzzy clusters with an additive spectral approach
EPIA'11 Proceedings of the 15th Portugese conference on Progress in artificial intelligence
Clustering with proximity knowledge and relational knowledge
Pattern Recognition
Recommendations using linked data
Proceedings of the 5th Ph.D. workshop on Information and knowledge
Ontology-Based genes similarity calculation with TF-IDF
ICICA'12 Proceedings of the Third international conference on Information Computing and Applications
Semi-metric Networks for Recommender Systems
WI-IAT '12 Proceedings of the The 2012 IEEE/WIC/ACM International Joint Conferences on Web Intelligence and Intelligent Agent Technology - Volume 03
Computers in Biology and Medicine
EsPRESSO: Efficient privacy-preserving evaluation of sample set similarity
Journal of Computer Security
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One of the most important objects in bioinformatics is a gene product (protein or RNA). For many gene products, functional information is summarized in a set of Gene Ontology (GO) annotations. For these genes, it is reasonable to include similarity measures based on the terms found in the GO or other taxonomy. In this paper, we introduce several novel measures for computing the similarity of two gene products annotated with GO terms. The fuzzy measure similarity (FMS) has the advantage that it takes into consideration the context of both complete sets of annotation terms when computing the similarity between two gene products. When the two gene products are not annotated by common taxonomy terms, we propose a method that avoids a zero similarity result. To account for the variations in the annotation reliability, we propose a similarity measure based on the Choquet integral. These similarity measures provide extra tools for the biologist in search of functional information for gene products. The initial testing on a group of 194 sequences representing three proteins families shows a higher correlation of the FMS and Choquet similarities to the BLAST sequence similarities than the traditional similarity measures such as pairwise average or pairwise maximum.