title: Extraction of Protein-Protein Interaction from Scientific Articles by Predicting Dominant Keywords.
abstract: For the automatic extraction of protein-protein interaction information from scientific articles, a machine learning approach is useful. The classifier is generated from training data represented using several features to decide whether a protein pair in each sentence has an interaction. Such a specific keyword that is directly related to interaction as "bind" or "interact" plays an important role for training classifiers. We call it a dominant keyword that affects the capability of the classifier. Although it is important to identify the dominant keywords, whether a keyword is dominant depends on the context in which it occurs. Therefore, we propose a method for predicting whether a keyword is dominant for each instance. In this method, a keyword that derives imbalanced classification results is tentatively assumed to be a dominant keyword initially. Then the classifiers are separately trained from the instance with and without the assumed dominant keywords. The validity of the assumed dominant keyword is evaluated based on the classification results of the generated classifiers. The assumption is updated by the evaluation result. Repeating this process increases the prediction accuracy of the dominant keyword. Our experimental results using five corpora show the effectiveness of our proposed method with dominant keyword prediction.
authors.affiliation: Graduate School of System Informatics, Kobe University, 1-1, Rokkodai, Nada, Kobe 657-8501, Japan.
authors.forename: Shun
authors.initials: S
authors.lastname: Koyabu
authors.affiliation: Graduate School of System Informatics, Kobe University, 1-1, Rokkodai, Nada, Kobe 657-8501, Japan.
authors.forename: Thi Thanh Thuy
authors.initials: TT
authors.lastname: Phan
authors.affiliation: Graduate School of System Informatics, Kobe University, 1-1, Rokkodai, Nada, Kobe 657-8501, Japan.
authors.forename: Takenao
authors.initials: T
authors.lastname: Ohkawa
mesh_terms: D057225:Data Mining; D006801:Humans; D000069550:Machine Learning; D017712:Peer Review, Research; D025941:Protein Interaction Mapping