Using real-valued metaclassifiers to integrate binding site predictions

Yi Sun, M. Robinson, Roderick Adams, Paul H. Kaye, A.G. Rust, N. Davey

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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Abstract

Currently the best algorithms for transcription factor binding site prediction are severely limited in accuracy. There is good reason to believe that predictions
from these different classes of algorithms could be used in conjunction to improve the quality of predictions. In this paper, we apply single layer networks, rules sets and support vector machines on predictions from 12 key real
valued algorithms. Furthermore, we use a ‘window’ of consecutive results in the input vector in order to contextualise the neighbouring results. We improve the classification result with the aid of under- and over- sampling techniques.
We find that support vector machines outperform each of the original individual algorithms and the other classifiers employed in this work. In particular they have a better tradeoff between recall and precision.
Original languageEnglish
Title of host publicationIn: Procs of IJCNN 2005, Int Joint Conference on Neural networks
PublisherInstitute of Electrical and Electronics Engineers (IEEE)
Pages481-486
Volume1
Publication statusPublished - 2005

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