Ranking and selection of features for improved prediction of nucleosome occupancy and modification

Authors:
Masanori Higashihara;Jovan David Rebolledo-Mendez;Yoichi Yamada;Kenji Satou
Affiliations:
Graduate School of Knowledge Science, Japan Advanced Institute of Science and Technology, Asahidai, Nomi, Ishikawa, Japan;Graduate School of Natural Science and Technology, Kanazawa University, Kakuma-machi, Kanazawa, Japan;Graduate School of Natural Science and Technology, Kanazawa University, Kakuma-machi, Kanazawa, Japan;Graduate School of Natural Science and Technology, Kanazawa University, Kakuma-machi, Kanazawa, Japan
Venue:
MCBC'08 Proceedings of the 9th WSEAS International Conference on Mathematics & Computers In Biology & Chemistry
Year:
2008

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Abstract

Among various factors that affect gene regulation, the occupancy and modification of nucleosomes are significant in eukaryotes. In this study, we tried to improve the accuracy of predicting them. Using feature ranking based on the Gini index and feature selection based on the ranking, we achieved a small but assured improvement. In addition, observed ranking of features revealed some relationships between features and nucleosome datasets.