A new discrete particle swarm algorithm applied to attribute selection in a bioinformatics data set
Proceedings of the 8th annual conference on Genetic and evolutionary computation
Proceedings of the 9th annual conference companion on Genetic and evolutionary computation
Journal of Artificial Evolution and Applications - Particle Swarms: The Second Decade
On the Importance of Comprehensible Classification Models for Protein Function Prediction
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
EvoBIO'08 Proceedings of the 6th European conference on Evolutionary computation, machine learning and data mining in bioinformatics
Comprehensible classification models: a position paper
ACM SIGKDD Explorations Newsletter
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Summary: The bioinformatics problem being addressed in this paper is to predict whether or not a protein has post-synaptic activity. This problem is of great intrinsic interest because proteins with post-synaptic activities are connected with functioning of the nervous system. Indeed, many proteins having post-synaptic activity have been functionally characterized by biochemical, immunological and proteomic exercises. They represent a wide variety of proteins with functions in extracellular signal reception and propagation through intracellular apparatuses, cell adhesion molecules and scaffolding proteins that link them in a web. The challenge is to automatically discover features of the primary sequences of proteins that typically occur in proteins with post-synaptic activity but rarely (or never) occur in proteins without post-synaptic activity, and vice-versa. In this context, we used data mining to automatically discover classification rules that predict whether or not a protein has post-synaptic activity. The discovered rules were analysed with respect to their predictive accuracy (generalization ability) and with respect to their interestingness to biologists (in the sense of representing novel, unexpected knowledge). Contact: A.A.Freitas@kent.ac.uk