• Journal of the Korea Institute of Information and Communication Engineering
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• v.18 no.10
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• pp.2562-2570
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• 2014

One of the important hints for inferring the function of unknown proteins is the knowledge about protein subcellular localization. Recently, there are considerable researches on the prediction of subcellular localization of proteins which simultaneously exist at multiple subcellular localization. In this paper, label power-set classification is improved for the accurate prediction of multiple subcellular localization. The predicted multi-labels from the label power-set classifier are combined with their prediction probability to give the final result. To find the accurate probability estimates of multi-classes, this paper employs pair-wise comparison and error-correcting output codes frameworks. Prediction experiments on protein subcellular localization show significant performance improvement.

• Journal of the Korea Institute of Information and Communication Engineering
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• v.18 no.7
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• pp.1749-1756
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• 2014

Knowledge about protein subcellular localization provides important information about protein function. This paper improves a label power-set multi-label classification for the accurate prediction of subcellular localization of proteins which simultaneously exist at multiple subcellular locations. Among multi-label classification methods, label power-set method can effectively model the correlation between subcellular locations of proteins performing certain biological function. With constrained optimization, this paper calculates combination weights which are used in the linear combination representation of a multi-label by other multi-labels. Using these weights, the prediction probabilities of multi-labels are combined to give final prediction results. Experimental results on human protein dataset show that the proposed method achieves higher performance than other prediction methods for protein subcellular localization. This shows that the proposed method can successfully enrich the prediction probability of multi-labels by exploiting the overlapping information between multi-labels.

• Journal of the Korea Institute of Information and Communication Engineering
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• v.18 no.4
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• pp.992-999
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• 2014

This paper presents an extensive experimental comparison of a variety of multi-label learning methods for the accurate prediction of subcellular localization of proteins which simultaneously exist at multiple subcellular locations. We compared several methods from three categories of multi-label classification algorithms: algorithm adaptation, problem transformation, and meta learning. Experimental results are analyzed using 12 multi-label evaluation measures to assess the behavior of the methods from a variety of view-points. We also use a new summarization measure to find the best performing method. Experimental results show that the best performing methods are power-set method pruning a infrequently occurring subsets of labels and classifier chains modeling relevant labels with an additional feature. futhermore, ensembles of many classifiers of these methods enhance the performance further. The recommendation from this study is that the correlation of subcellular locations is an effective clue for classification, this is because the subcellular locations of proteins performing certain biological function are not independent but correlated.

• Journal of information and communication convergence engineering
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• v.15 no.1
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• pp.53-61
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• 2017

The preferred feature selection methods for text classification are filter-based. In a common filter-based feature selection scheme, unique scores are assigned to features; then, these features are sorted according to their scores. The last step is to add the top-N features to the feature set. In this paper, we propose an improved global feature selection scheme wherein its last step is modified to obtain a more representative feature set. The proposed method aims to improve the classification performance of global feature selection methods by creating a feature set representing all classes almost equally. For this purpose, a local feature selection method is used in the proposed method to label features according to their discriminative power on classes; these labels are used while producing the feature sets. Experimental results obtained using the well-known 20 Newsgroups and Reuters-21578 datasets with the k-nearest neighbor algorithm and a support vector machine indicate that the proposed method improves the classification performance in terms of a widely known metric ($F_1$).